Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 6 of 18
Found at i:884451 original size:90 final size:90
Alignment explanation
Indices: 884296--884473 Score: 216
Period size: 90 Copynumber: 2.0 Consensus size: 90
884286 CACAACTTCG
** * * ***
884296 GGGAAACTCCAACTTTACTACTCTGAGGGGATACTCTAACCCTGTTTATCATAAAAAATCAAATT
1 GGGAAACTCCAACCCTACTACTCTGAAGGGATACTCCAACCCACCTTATCATAAAAAATCAAATT
* * *
884361 TTCTCTTTGTTCTTAAATATTTTTA
66 TTCTCTTTATTCCTAAACATTTTTA
*
884386 GGGAAACTCGAACCCTACTACTCTGAAGGGATACTCCAACCCCACCTT-TCATAAAAAATTC-AA
1 GGGAAACTCCAACCCTACTACTCTGAAGGGATACTCCAA-CCCACCTTATCATAAAAAA-TCAAA
*
884449 TTTTTTCTTTATTCCTAAACATTTT
64 TTTTCTCTTTATTCCTAAACATTTT
884474 CTAAAATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
90 67 0.91
91 7 0.09
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (90 bp):
GGGAAACTCCAACCCTACTACTCTGAAGGGATACTCCAACCCACCTTATCATAAAAAATCAAATT
TTCTCTTTATTCCTAAACATTTTTA
Found at i:884645 original size:105 final size:103
Alignment explanation
Indices: 884386--884792 Score: 368
Period size: 105 Copynumber: 3.8 Consensus size: 103
884376 AATATTTTTA
* * * *
884386 GGGAAACTCGAACCCTACTACTCTGAAGGGATACTCCAACCCCA-CCTTTCATAAAAAATTC-AA
1 GGGAAACTCCAACCCCACTACTCCG-AGGGATACTCCAA-CCCATTC-TTCATAAAAAA-TCAAA
* * * *
884449 TTTTTTCTTTATTCCTAAACATTTTCTAAAATTTTTGACTTTG
62 TTTTCTCTTTATTCCTAAATATTTTC-ATAATTCTTGACTTTG
* * ** ***
884492 GGGAAACTCCAACCTCATTACTCCGAAAAGATACTCCAATCTTGTTCTTCATAAAAAATCAAATT
1 GGGAAACTCCAACCCCACTACTCCG-AGGGATACTCCAA-CCCATTCTTCATAAAAAATCAAATT
* **
884557 TTCTCTTTGTTCCTAAATATTTTCATAATTCTCAACTTTG
64 TTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
** * * *
884597 AAGAAACTCTAACCCCACTACTCCGAGGAGATACTCCAACCACATTCTTTATAAAAAATAAAATT
1 GGGAAACTCCAACCCCACTACTCCGAGG-GATACTCCAACC-CATTCTTCATAAAAAATCAAATT
* * * *
884662 TTCTCTTTGTTCCTAAATATTTTAATGATTCTTGACTTCG
64 TTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
* * * * * *
884702 GGGAAAGTCCAACCTCACTGCTCGGAGGGAATACTCCAACCCTGTTTTTCATAAAAAAAATCAAA
1 GGGAAACTCCAACCCCACTACTCCGAGGG-ATACTCCAACCC-ATTCTTCAT--AAAAAATCAAA
* *
884767 TTTTCTCATTATTCTTAAATATTTTC
62 TTTTCTCTTTATTCCTAAATATTTTC
884793 GGGGAAACTC
Statistics
Matches: 242, Mismatches: 51, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
104 4 0.02
105 136 0.56
106 69 0.29
107 33 0.14
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (103 bp):
GGGAAACTCCAACCCCACTACTCCGAGGGATACTCCAACCCATTCTTCATAAAAAATCAAATTTT
CTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
Found at i:885529 original size:58 final size:58
Alignment explanation
Indices: 885439--885556 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
885429 GAAGAATAAA
* * *
885439 GGCTTGGAGTCCGATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
1 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
* *
885497 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTAT
1 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
885555 GG
1 GG
885557 GCCTATTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (58 bp):
GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
Found at i:890377 original size:15 final size:16
Alignment explanation
Indices: 890359--890388 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
890349 GAATTATTAA
890359 TGAAAGAA-CAGAAAT
1 TGAAAGAAGCAGAAAT
890374 TGAAAGAAGCAGAAA
1 TGAAAGAAGCAGAAA
890389 AAAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.23, T:0.10
Consensus pattern (16 bp):
TGAAAGAAGCAGAAAT
Found at i:893337 original size:46 final size:46
Alignment explanation
Indices: 893271--893370 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
893261 TACAAGAGCT
893271 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
1 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
*
893317 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCT
1 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
893363 TAT-TATGC
1 TATATATGC
893371 TAACAAGCCC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (46 bp):
TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
Found at i:904280 original size:90 final size:90
Alignment explanation
Indices: 904125--904302 Score: 207
Period size: 90 Copynumber: 2.0 Consensus size: 90
904115 CACAACTTCG
** * * ***
904125 GGGAAACTCCAACTTTACTACTCTGAGGGGATACTCTAACCCTGTTTATCATAAAAAATCAAATT
1 GGGAAACTCCAACCCTACTACTCTGAAGGGATACTCCAACCCACCTTATCATAAAAAATCAAATT
* * *
904190 TTCTCTTTGTTCTTAAATATTTTTA
66 TTCTCTTTATTCCTAAACATTTTTA
* *
904215 GGGAAACTCGAACCCTACTACTCTGAAGGGATACTCCAACCCCACCTT-TCATAAAAAAAT-TAA
1 GGGAAACTCCAACCCTACTACTCTGAAGGGATACTCCAA-CCCACCTTATCAT-AAAAAATCAAA
*
904278 TTTTTTCTTTATTCCTAAACATTTT
64 TTTTCTCTTTATTCCTAAACATTTT
904303 CTAAAATTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
90 61 0.84
91 12 0.16
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (90 bp):
GGGAAACTCCAACCCTACTACTCTGAAGGGATACTCCAACCCACCTTATCATAAAAAATCAAATT
TTCTCTTTATTCCTAAACATTTTTA
Found at i:904474 original size:105 final size:104
Alignment explanation
Indices: 904215--904621 Score: 363
Period size: 105 Copynumber: 3.8 Consensus size: 104
904205 AATATTTTTA
* * * * *
904215 GGGAAACTCGAACCCTACTACTCTGAAGGGATACTCCAACCCCA-CCTTTCATAAAAAAAT-TAA
1 GGGAAACTCCAACCCCACTACTCCG-AGGGATACTCCAA-CCCATTC-TTCATAAAAAAATCAAA
* * * *
904278 TTTTTTCTTTATTCCTAAACATTTTCTAAAATTTTTGACTTTG
63 TTTTCTCTTTATTCCTAAATATTTTC-ATAATTCTTGACTTTG
* * ** ***
904321 GGGAAACTCCAACCTCATTACTCCGAAAAGATACTCCAATCTTGTTCTTCAT-AAAAAATCAAAT
1 GGGAAACTCCAACCCCACTACTCCG-AGGGATACTCCAA-CCCATTCTTCATAAAAAAATCAAAT
* **
904385 TTTCTCTTTGTTCCTAAATATTTTCATAATTCTCAACTTTG
64 TTTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
** * * *
904426 AAGAAACTCTAACCCCACTACTCCGAGGAGATACTCCAACCACATTCTTTAT-AAAAAATAAAAT
1 GGGAAACTCCAACCCCACTACTCCGAGG-GATACTCCAACC-CATTCTTCATAAAAAAATCAAAT
* * * *
904490 TTTCTCTTTGTTCCTAAATATTTTAATGATTCTTGACTTCG
64 TTTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
* * * * * *
904531 GGGAAAGTCCAACCTCACTGCTCGGAGGGAATACTCCAACCCTGTTTTTCATAAAAAAAATCAAA
1 GGGAAACTCCAACCCCACTACTCCGAGGG-ATACTCCAACCC-ATTCTTCAT-AAAAAAATCAAA
* *
904596 TTTTCTCATTATTCTTAAATATTTTC
63 TTTTCTCTTTATTCCTAAATATTTTC
904622 GGGGAAACTC
Statistics
Matches: 241, Mismatches: 52, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
104 4 0.02
105 141 0.59
106 63 0.26
107 33 0.14
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (104 bp):
GGGAAACTCCAACCCCACTACTCCGAGGGATACTCCAACCCATTCTTCATAAAAAAATCAAATTT
TCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
Found at i:905358 original size:58 final size:58
Alignment explanation
Indices: 905268--905385 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
905258 GAAGAATAAA
* * *
905268 GGCTTGGAGTCCGATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
1 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
* *
905326 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTAT
1 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
905384 GG
1 GG
905386 GCCTATTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (58 bp):
GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
Found at i:910205 original size:15 final size:16
Alignment explanation
Indices: 910187--910216 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
910177 GAATTATTAA
910187 TGAAAGAA-CAGAAAT
1 TGAAAGAAGCAGAAAT
910202 TGAAAGAAGCAGAAA
1 TGAAAGAAGCAGAAA
910217 AAAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.23, T:0.10
Consensus pattern (16 bp):
TGAAAGAAGCAGAAAT
Found at i:913165 original size:46 final size:46
Alignment explanation
Indices: 913099--913198 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
913089 TACAAGAGCT
913099 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
1 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
*
913145 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCT
1 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
913191 TAT-TATGC
1 TATATATGC
913199 TAACAAGCCC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (46 bp):
TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
Found at i:924283 original size:104 final size:105
Alignment explanation
Indices: 924036--924442 Score: 367
Period size: 105 Copynumber: 3.8 Consensus size: 105
924026 AATATTTTTA
* * ** *
924036 GGGAAACTCGAACC-CTACTACTCTGAAGG-GATACTCCAACC-CCTCCTTTCATAAAAAATTC-
1 GGGAAACTCCAACCTC-ACTACTCCG-AGGAGATACTCCAACCATGTTC-TTCATAAAAAA-TCA
* * * *
924097 AATTTTTTCTTTATTCCTAAACATTTTCTAAAATTTTTGACTTTG
62 AATTTTCTCTTTATTCCTAAATATTTTC-ATAATTCTTGACTTTG
* ** * *
924142 GGGAAACTCCAACCTCATTACTCCGAAAAGATACTCCAATCTTGTTCTTCAT-AAAAATCAAATT
1 GGGAAACTCCAACCTCACTACTCCGAGGAGATACTCCAACCATGTTCTTCATAAAAAATCAAATT
* **
924206 TTCTCTTTGTTCCTAAATATTTTCATAATTCTCAACTTTG
66 TTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
** * * ** * *
924246 AAGAAACTCTAACCCCACTACTCCGAGGAGATACTCCAACCACATTCTTTATAAAAAATAAAATT
1 GGGAAACTCCAACCTCACTACTCCGAGGAGATACTCCAACCATGTTCTTCATAAAAAATCAAATT
* * * *
924311 TTCTCTTTGTTCCTAAATATTTTAATGATTCTTGACTTCG
66 TTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
* * * * *
924351 GGGAAAGTCCAACCTCACTGCTCGGAGG-GAATACTCCAACCCTGTTTTTCATAAAAAAAAATCA
1 GGGAAACTCCAACCTCACTACTCCGAGGAG-ATACTCCAACCATGTTCTTCAT---AAAAAATCA
* *
924415 AATTTTCTCATTATTCTTAAATATTTTC
62 AATTTTCTCTTTATTCCTAAATATTTTC
924443 GGGGAAACTC
Statistics
Matches: 241, Mismatches: 51, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
104 55 0.23
105 115 0.48
106 36 0.15
107 3 0.01
108 32 0.13
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (105 bp):
GGGAAACTCCAACCTCACTACTCCGAGGAGATACTCCAACCATGTTCTTCATAAAAAATCAAATT
TTCTCTTTATTCCTAAATATTTTCATAATTCTTGACTTTG
Found at i:925179 original size:58 final size:58
Alignment explanation
Indices: 925089--925206 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
925079 GAAGAATAAA
* * *
925089 GGCTTGGAGTCCGATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
1 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
* *
925147 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTAT
1 GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
925205 GG
1 GG
925207 GCCTATTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (58 bp):
GGCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATCTAT
Found at i:930027 original size:15 final size:16
Alignment explanation
Indices: 930009--930038 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
929999 GAATTATTAA
930009 TGAAAGAA-CAGAAAT
1 TGAAAGAAGCAGAAAT
930024 TGAAAGAAGCAGAAA
1 TGAAAGAAGCAGAAA
930039 AAAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.23, T:0.10
Consensus pattern (16 bp):
TGAAAGAAGCAGAAAT
Found at i:932987 original size:46 final size:46
Alignment explanation
Indices: 932921--933020 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
932911 TACAAGAGCT
932921 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
1 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
*
932967 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCT
1 TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
933013 TAT-TATGC
1 TATATATGC
933021 TAACAAGCCC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (46 bp):
TATATATGCCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCA
Found at i:945635 original size:73 final size:69
Alignment explanation
Indices: 945488--945644 Score: 167
Period size: 73 Copynumber: 2.2 Consensus size: 69
945478 CATTTTCCTC
* * * *
945488 TAGTCCTCAAATATCAAGATGTTTTTTTCTTACCTACCATAAAGCCAAACTAGTGGCACCTATCT
1 TAGTCCTCAAAGAGCAAGATGTCTTTTTCTTACCTACCACAAAGCCAAACTAGTGGCACCTATCT
945553 ACCT
66 ACCT
* *
945557 CAGTCCTCAAAGAGCAAGATG-CTTTTTCTTACCTATCACAAAGCCCACACAAACT-GCTGGCAC
1 TAGTCCTCAAAGAGCAAGATGTCTTTTTCTTACCTACCACAAAG----C-CAAACTAG-TGGCAC
945620 CT-TCTTACCT
60 CTATC-TACCT
*
945630 TAGTCCACAAAGAGC
1 TAGTCCTCAAAGAGC
945645 CAAACACCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
68 19 0.26
69 18 0.25
72 4 0.05
73 32 0.44
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (69 bp):
TAGTCCTCAAAGAGCAAGATGTCTTTTTCTTACCTACCACAAAGCCAAACTAGTGGCACCTATCT
ACCT
Found at i:945857 original size:73 final size:73
Alignment explanation
Indices: 945511--945980 Score: 226
Period size: 73 Copynumber: 6.6 Consensus size: 73
945501 TCAAGATGTT
* * *
945511 TTTTTCTTACCTACCATAAAG-C--CA-AA-CTAGTGGCACCTATCTACCTCAGTCC-TCAAAGA
1 TTTTTCTTACCTACCACAAAGCCTACACAAGCTGGTGGCACCTATCTACCTTAGTCCAT-AAAGA
**
945570 GCAAGA-TGC
65 GCTGGACT-C
* * * * *
945579 TTTTTCTTACCTATCACAAAGCCCACACAAACTGCTGGCACCT-TCTTACCTTAGTCCACAAAGA
1 TTTTTCTTACCTACCACAAAGCCTACACAAGCTGGTGGCACCTATC-TACCTTAGTCCATAAAGA
*** *
945643 GCCAAACAC
65 GCTGGACTC
* * ** * * * * * * *
945652 CTTTT-TTACCTACTATGAAG-CTCGCATAAGCTAGTAGCATCTA-GT-CC--AGTTC-TCAAAG
1 TTTTTCTTACCTACCACAAAGCCT-ACACAAGCTGGTGGCACCTATCTACCTTAGTCCAT-AAAG
**
945710 AGCAAGACAT-
64 AGCTGGAC-TC
* ** * * * * * *
945720 TTTTCCTTACCTACTTCAAAGCCTAAAGAAGCTGGTTGCACCTATCCA-CTTATGCCCACAAAGA
1 TTTTTCTTACCTACCACAAAGCCTACACAAGCTGGTGGCACCTATCTACCTTA-GTCCATAAAGA
945784 GCTGGACT-
65 GCTGGACTC
* * *
945792 TATTTTCTTATCTACCACAAAGCCTACACAAACTGGTGGCACCTATCTACCTTAGTCCATGAAGA
1 T-TTTTCTTACCTACCACAAAGCCTACACAAGCTGGTGGCACCTATCTACCTTAGTCCATAAAGA
*
945857 GTTGGA-TGC
65 GCTGGACT-C
* * *** * ** * *
945866 CTTTTCTTACCTACTACAAAGCCCGTATAAGCTAATGGCACCTATCTACCTGAGTCTATAAAGAG
1 TTTTTCTTACCTACCACAAAGCCTACACAAGCTGGTGGCACCTATCTACCTTAGTCCATAAAGAG
945931 CTGGACTC
66 CTGGACTC
* *
945939 TTTTTCTTACCTATCC-CAAAG-CTCACACAAGTTTGTGGCACC
1 TTTTTCTTACCTA-CCACAAAGCCT-ACACAAGCTGGTGGCACC
945981 GTGTTCATCT
Statistics
Matches: 293, Mismatches: 82, Indels: 49
0.69 0.19 0.12
Matches are distributed among these distances:
68 36 0.12
69 27 0.09
70 5 0.02
71 4 0.01
72 32 0.11
73 183 0.62
74 6 0.02
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (73 bp):
TTTTTCTTACCTACCACAAAGCCTACACAAGCTGGTGGCACCTATCTACCTTAGTCCATAAAGAG
CTGGACTC
Found at i:948688 original size:380 final size:373
Alignment explanation
Indices: 947974--948673 Score: 842
Period size: 380 Copynumber: 1.9 Consensus size: 373
947964 ATTATGGCCT
947974 AGGTTGGAAAATCATTTTCTAACCATAAAATATTTCCTTGACTTTTTTATACTTTTTAAAGCCAT
1 AGGTTGGAAAATCATTTTCTAACCATAAAATATTTCCTTGACTTTTTTATACTTTTTAAAGCCAT
* * * * *
948039 CAAAATATCTTTCCAAGTGTGTCTTATTCGCCTTTGGATCATTCCAGATGAGAGAACTATGATTT
66 CAAAATACCTTTCCAAGTGTGCCTCATTCACCTTTGGATCATTCCAAATGAGAGAACTATGATTT
* * * * * * * *
948104 TTGAACCTTTGCTGCTTGGAACCCTTGGAGCCAGCATGCAATGTTTTGTTTGAGCCATTTGGGCT
131 TTAAACCTTTGCTGCCTGAAACCCTTAGAACCAGCATGCAATATTCTGTTAGAGCCATTTGGGCT
** * *
948169 CATTAAACGATTTTTCCAAAACTTTTAAATATTTTTCTTAAAGAGTCTACAAAATTCTCTTTCTA
196 CACCAAACGATTTTTCCAAAACTTTTAAATATTTTTCTTAAAAAGTCTACAAAATTCTCTTTCCA
*
948234 GAAAGGTATGGTTCACTATTTAATGGTTCCAAATAAGTCCAAAATGATTTTTCAAAATTTGATTT
261 GAAAAGTATGGTTCACTATTTAATGGTTCCAAATAAGTCCAAAATGATTTTTCAAAATTTGATTT
948299 GTTTTTTTACTTGCATATGTTGCTGGTATCAAGCAGCATTGCAACCTA
326 GTTTTTTTACTTGCATATGTTGCTGGTATCAAGCAGCATTGCAACCTA
* ** * * *
948347 AGGTTGGAAAATTATTTT-TGAACCATAAAATATTTTTTTTATTTTTTTGATATTTTTTCCTTAA
1 AGGTTGGAAAATCATTTTCT-AACCATAAAATATTTCCTTGACTTTTTT-ATA--CTTT--TTAA
* * *
948411 AGGCCATCGAAATACCTTTCCAAAGT-TGCCTCATTCA-CTCTTGGATCATTCCAAATGAGGGAG
60 A-GCCATCAAAATACCTTTCC-AAGTGTGCCTCATTCACCT-TTGGATCATTCCAAATGAGAGAA
* * *
948474 TTATGATTTTTCAAACCTTTGTTGCCTGAAACTCC-TAGAACTAGCATGCAATATTCTGTTCAG-
122 CTATGATTTTT-AAACCTTTGCTGCCTGAAAC-CCTTAGAACCAGCATGCAATATTCTGTT-AGA
* * *
948537 GCCATTTGGGCTCACCAAACGATCTTTT-CAAAACTTTTAAATATTTTTCTTAAAAAGTTTATAG
184 GCCATTTGGGCTCACCAAACGAT-TTTTCCAAAACTTTTAAATATTTTTCTTAAAAAGTCTACAA
* * * * * *
948601 AATTCTTTTTCCA-AAAAGTATGGTTCA-TGATTTCATGATTTTC-AATGAGTCCGAAATGATTT
248 AATTCTCTTTCCAGAAAAGTATGGTTCACT-ATTTAATG-GTTCCAAATAAGTCCAAAATGATTT
*
948663 TTCAAATTTTG
311 TTCAAAATTTG
948674 GTTCATTTTT
Statistics
Matches: 272, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
372 1 0.00
373 41 0.15
374 3 0.01
376 3 0.01
378 8 0.03
379 102 0.38
380 107 0.39
381 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (373 bp):
AGGTTGGAAAATCATTTTCTAACCATAAAATATTTCCTTGACTTTTTTATACTTTTTAAAGCCAT
CAAAATACCTTTCCAAGTGTGCCTCATTCACCTTTGGATCATTCCAAATGAGAGAACTATGATTT
TTAAACCTTTGCTGCCTGAAACCCTTAGAACCAGCATGCAATATTCTGTTAGAGCCATTTGGGCT
CACCAAACGATTTTTCCAAAACTTTTAAATATTTTTCTTAAAAAGTCTACAAAATTCTCTTTCCA
GAAAAGTATGGTTCACTATTTAATGGTTCCAAATAAGTCCAAAATGATTTTTCAAAATTTGATTT
GTTTTTTTACTTGCATATGTTGCTGGTATCAAGCAGCATTGCAACCTA
Found at i:949698 original size:17 final size:16
Alignment explanation
Indices: 949676--949728 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
949666 CAAATGCTGG
949676 TTTTTTCTTTTTTTATT
1 TTTTTTCTTTTTTT-TT
*
949693 TTTTTTATTTTTTTGTT
1 TTTTTTCTTTTTTT-TT
*
949710 TTCTTTCTTCTTTTTTT
1 TTTTTTCTT-TTTTTTT
949727 TT
1 TT
949729 GAAAAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 26 0.84
18 5 0.16
ACGTcount: A:0.04, C:0.08, G:0.02, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTT
Found at i:954531 original size:131 final size:133
Alignment explanation
Indices: 954205--954741 Score: 585
Period size: 141 Copynumber: 4.0 Consensus size: 133
954195 ACCCCTATGA
* * *
954205 AAAACCATAGGACTATTAGAAA-CTTG---A-TAAGATAATAATTTTTTATTTAATTTTTAATTT
1 AAAACCATGGGAATATTAGAAATCTTGAAAATTAAGATAATAA-TTTTTATTCAATTTTTAATTT
* ** *
954265 CCAAAAAATTCATTTCGTACCTAAATGGAGAACTGAAAAGATATGAAAAATTTTGAAGATTTCTA
65 CCAAAAAATTCATTTCGTACCT-TATGGAGAACCAAAAAGATATCAAAAATTTTGAAGATTTC--
954330 TACCCCTATCG
127 TA---CTA-CG
* *
954341 AAAACTA-GAGGAATATTAGAAATCTTGGAAAGTTAAGATAATAATTTTTATTCAATTTTTAATT
1 AAAACCATG-GGAATATTAGAAATCTT-GAAAATTAAGATAATAATTTTTATTCAATTTTTAATT
* * **
954405 TTCAAAAAATTCATTTCTTACC-T-TGGAGAACTGAAAAGATA-CAAAAAGTTTTGAAGATTTCT
64 TCCAAAAAATTCATTTCGTACCTTATGGAGAACCAAAAAGATATCAAAAA-TTTTGAAGATTTCT
*
954467 A-TAGG
128 ACTACG
954472 AAAACCATGGGAATATTAGAAATCTTGAACAATTAAGATAATAATTTTTATTCAATTTTTAATTT
1 AAAACCATGGGAATATTAGAAATCTTGAA-AATTAAGATAATAATTTTTATTCAATTTTTAATTT
* * *
954537 CAAAAAAATTCATTTCATACCTTAATGAAGAACCAAAAAGATA-CAAAAAGTTTTGAAGATTTTT
65 CCAAAAAATTCATTTCGTACCTT-ATGGAGAACCAAAAAGATATCAAAAA-TTTTGAAGA--TTT
* *
954601 GTACCCCTACA
126 CTA---CTACG
*
954612 AAAATCCATTGGAATATTAGAAATCTTGAAAAATTAAGATAATAA-TTTTATTCAATTTTTAATT
1 AAAA-CCATGGGAATATTAGAAATCTTG-AAAATTAAGATAATAATTTTTATTCAATTTTTAATT
* * *
954676 TCCAAAAAATTCATTTCGTACCTTAATGGAGAACCAAAAAAATATGAAAAATTTTGAATATTTCT
64 TCCAAAAAATTCATTTCGTACCTT-ATGGAGAACCAAAAAGATATCAAAAATTTTGAAGATTTCT
954741 A
128 A
954742 TACCCTTACA
Statistics
Matches: 350, Mismatches: 29, Indels: 42
0.83 0.07 0.10
Matches are distributed among these distances:
130 3 0.01
131 76 0.22
132 4 0.01
134 31 0.09
136 25 0.07
137 8 0.02
138 37 0.11
140 73 0.21
141 80 0.23
142 13 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (133 bp):
AAAACCATGGGAATATTAGAAATCTTGAAAATTAAGATAATAATTTTTATTCAATTTTTAATTTC
CAAAAAATTCATTTCGTACCTTATGGAGAACCAAAAAGATATCAAAAATTTTGAAGATTTCTACT
ACG
Found at i:954629 original size:272 final size:274
Alignment explanation
Indices: 954232--954743 Score: 730
Period size: 272 Copynumber: 1.9 Consensus size: 274
954222 AGAAACTTGA
* * * *
954232 TAAGATAATAATTTTTTATTTAATTTTTAATTTCCAAAAAATTCATTTCGTACCTAAATGGAGAA
1 TAAGATAATAATTTTTTATTCAATTTTTAATTTCAAAAAAATTCATTTCATACCTAAATGAAGAA
** * * *
954297 CTGAAAAGATATGAAAAATTTTGAAGATTTCTATACCCCTATCGAAAACTAGAGGAATATTAGAA
66 CCAAAAAGATATCAAAAATTTTGAAGATTTCTATACCCCTATCAAAAACCAGAGGAATATTAGAA
* * * *
954362 ATCTTGGAAAGTTAAGATAATAATTTTTATTCAATTTTTAATTTTCAAAAAATTCATTTCTTACC
131 ATCTTGAAAAATTAAGATAATAA-TTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACC
** *
954427 -T-TGGAGAACTGAAAAGATA-CAAAAAGTTTTGAAGATTTCTATAGGAAAACCATGGGAATATT
195 TTATGGAGAACCAAAAAAATATCAAAAA-TTTTGAAGATTTCTATAGGAAAACCATGGGAATATT
954489 AGAAATCTTGAACAAT
259 AGAAATCTTGAACAAT
*
954505 TAAGATAATAA-TTTTTATTCAATTTTTAATTTCAAAAAAATTCATTTCATACCTTAATGAAGAA
1 TAAGATAATAATTTTTTATTCAATTTTTAATTTCAAAAAAATTCATTTCATACCTAAATGAAGAA
* * **
954569 CCAAAAAGATA-CAAAAAGTTTTGAAGATTTTTGTACCCCTA-CAAAAATCCATTGGAATATTAG
66 CCAAAAAGATATCAAAAA-TTTTGAAGATTTCTATACCCCTATCAAAAA-CCAGAGGAATATTAG
954632 AAATCTTGAAAAATTAAGATAATAATTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTAC
129 AAATCTTGAAAAATTAAGATAATAATTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTAC
* *
954697 CTTAATGGAGAACCAAAAAAATATGAAAAATTTTGAATATTTCTATA
194 CTT-ATGGAGAACCAAAAAAATATCAAAAATTTTGAAGATTTCTATA
954744 CCCTTACAGA
Statistics
Matches: 210, Mismatches: 23, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
271 49 0.23
272 114 0.54
273 11 0.05
274 31 0.15
275 5 0.02
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (274 bp):
TAAGATAATAATTTTTTATTCAATTTTTAATTTCAAAAAAATTCATTTCATACCTAAATGAAGAA
CCAAAAAGATATCAAAAATTTTGAAGATTTCTATACCCCTATCAAAAACCAGAGGAATATTAGAA
ATCTTGAAAAATTAAGATAATAATTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCT
TATGGAGAACCAAAAAAATATCAAAAATTTTGAAGATTTCTATAGGAAAACCATGGGAATATTAG
AAATCTTGAACAAT
Found at i:954746 original size:140 final size:140
Alignment explanation
Indices: 954176--954775 Score: 698
Period size: 140 Copynumber: 4.4 Consensus size: 140
954166 TAGGGCATAC
* * *
954176 AAAG-TTTGAAAATTTCTATACCCCTATGAAAAACCATAGGACTATTAGAAA-CTTG----A-TA
1 AAAGTTTTGAAGATTTCTATACCCCTA-CAAAAACCATAGGAATATTAGAAATCTTGAAAAATTA
* * *
954234 AGATAATAATTTTTTATTTAATTTTTAATTTCCAAAAAATTCATTTCGTACCTAAATGGAGAACT
65 AGATAATAA-TTTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCTTAATGGAGAACC
* *
954299 GAAAAGATATGAA
129 AAAAAGATA-CAA
* * * * *
954312 AAA-TTTTGAAGATTTCTATACCCCTATCGAAAACTAGAGGAATATTAGAAATCTTGGAAAGTTA
1 AAAGTTTTGAAGATTTCTATACCCCTA-CAAAAACCATAGGAATATTAGAAATCTTGAAAAATTA
* * **
954376 AGATAATAATTTTTATTCAATTTTTAATTTTCAAAAAATTCATTTCTTACC-T--TGGAGAACTG
65 AGATAATAATTTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCTTAATGGAGAACCA
954438 AAAAGATACAA
130 AAAAGATACAA
** * *
954449 AAAGTTTTGAAGATTTC--TA----TAGGAAAACCATGGGAATATTAGAAATCTTGAACAATTAA
1 AAAGTTTTGAAGATTTCTATACCCCTACAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAA
* * *
954508 GATAATAATTTTTATTCAATTTTTAATTTCAAAAAAATTCATTTCATACCTTAATGAAGAACCAA
66 GATAATAATTTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCTTAATGGAGAACCAA
954573 AAAGATACAA
131 AAAGATACAA
* * *
954583 AAAGTTTTGAAGATTTTTGTACCCCTACAAAAATCCATTGGAATATTAGAAATCTTGAAAAATTA
1 AAAGTTTTGAAGATTTCTATACCCCTACAAAAA-CCATAGGAATATTAGAAATCTTGAAAAATTA
954648 AGATAATAA-TTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCTTAATGGAGAACCA
65 AGATAATAATTTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCTTAATGGAGAACCA
* *
954712 AAAAAATATGAA
130 AAAAGATA-CAA
* * * * *
954724 AAA-TTTTGAATATTTCTATACCCTTACAGACAACCATAAGAATAATAGAAAT
1 AAAGTTTTGAAGATTTCTATACCCCTACA-AAAACCATAGGAATATTAGAAAT
954776 ATATAAAAAT
Statistics
Matches: 401, Mismatches: 43, Indels: 36
0.84 0.09 0.08
Matches are distributed among these distances:
131 78 0.19
132 3 0.01
134 34 0.08
136 48 0.12
137 9 0.02
138 31 0.08
140 102 0.25
141 85 0.21
142 11 0.03
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (140 bp):
AAAGTTTTGAAGATTTCTATACCCCTACAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAA
GATAATAATTTTTATTCAATTTTTAATTTCCAAAAAATTCATTTCGTACCTTAATGGAGAACCAA
AAAGATACAA
Found at i:957264 original size:294 final size:293
Alignment explanation
Indices: 956702--957292 Score: 1040
Period size: 294 Copynumber: 2.0 Consensus size: 293
956692 AATCCTTCCC
*
956702 CACTTTGAACCAACTTTCAAACCCATCCAATGAATCTCTGGACCTTATAGACCTTGAAATTGATA
1 CACTTTGAACCAACTCTCAAACCCATCCAATGAATCTCTGGACCTTATAGACCTTGAAATTGATA
956767 TTTTGAGTTTCGTAACTCAAAATGGTCGATGGCAACTCTAAATTTATAGTTACTTCATCATGATT
66 TTTTGAGTTTCGTAACTCAAAATGGTCGATGGCAACTCTAAATTTATAGTTACTTCATCATGATT
*
956832 ATCTAAGAATAGTTGGTTGAGTGATTAGTCCAACAGTCTTTCTCCCTTCATATTATTATGCCTAA
131 ATCTAAGAATAGTTGGATGAGTGATTAGTCCAACAGTCTTTCTCCCTTCATATTATTATGCCTAA
** *
956897 TTTTCAATCAAGGGATAATCTAACGGCTCAACCACAACACCATATGCACCCGTTTTGGATTGTCT
196 TTTTCAATCAAGGGATAATCTAACGGCTCAACCACAACACCATATGCACCCACTTTCGATTGTCT
*
956962 AGAGAAAAAAAAAGAGGGTATGTGGTGATAGAGGG
261 AGAG-AAAAAAAA-AGGGTATGTGGTGATAGAAGG
* *
956997 CACTTTTAACCAGCTCTCAAACCCATCCAATG-ATCTCTGGACCTTATAGACCTTGAAATTGATA
1 CACTTTGAACCAACTCTCAAACCCATCCAATGAATCTCTGGACCTTATAGACCTTGAAATTGATA
957061 TTTTGAGTTTCGTAACTCAAAATGGTCGATGGCAACTCTAAATTTATAGTTACTTCATCATGATT
66 TTTTGAGTTTCGTAACTCAAAATGGTCGATGGCAACTCTAAATTTATAGTTACTTCATCATGATT
* **
957126 GTCTAAGAATAGTTGGATGAGTGATTAGTCCAGTAGTCTTTCTCCCTTCATATTATTATGCCTAA
131 ATCTAAGAATAGTTGGATGAGTGATTAGTCCAACAGTCTTTCTCCCTTCATATTATTATGCCTAA
* *
957191 TTTTCAATCAAGGGATAATCTAAGGGCTCAACCACGACACCATATGCACCCACTTTCGATTGTCT
196 TTTTCAATCAAGGGATAATCTAACGGCTCAACCACAACACCATATGCACCCACTTTCGATTGTCT
957256 AGAGAAAAAAAAAGGGTATGTGGTGATAGAAGG
261 AGAGAAAAAAAAAGGGTATGTGGTGATAGAAGG
957289 CACT
1 CACT
957293 GACAATGCAT
Statistics
Matches: 283, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
292 24 0.08
293 8 0.03
294 222 0.78
295 29 0.10
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (293 bp):
CACTTTGAACCAACTCTCAAACCCATCCAATGAATCTCTGGACCTTATAGACCTTGAAATTGATA
TTTTGAGTTTCGTAACTCAAAATGGTCGATGGCAACTCTAAATTTATAGTTACTTCATCATGATT
ATCTAAGAATAGTTGGATGAGTGATTAGTCCAACAGTCTTTCTCCCTTCATATTATTATGCCTAA
TTTTCAATCAAGGGATAATCTAACGGCTCAACCACAACACCATATGCACCCACTTTCGATTGTCT
AGAGAAAAAAAAAGGGTATGTGGTGATAGAAGG
Found at i:958771 original size:51 final size:51
Alignment explanation
Indices: 958716--958831 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
958706 TATGGGAAGA
* * * *
958716 AAATGTATCGATA-TATTTCTCATTGTATTGATATATTCTGGG-TTTTGACCC
1 AAATGTATTGATACT-TTT-TCATTATATTAATACATTCTGGGTTTTTGACCC
* *
958767 AAATGTATTGATACTTTTTTATTATATTAATACATTCTGGGTTTTTGACTC
1 AAATGTATTGATACTTTTTCATTATATTAATACATTCTGGGTTTTTGACCC
958818 AAATGTATTGATAC
1 AAATGTATTGATAC
958832 ATACAGGCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 19 0.33
51 37 0.65
52 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (51 bp):
AAATGTATTGATACTTTTTCATTATATTAATACATTCTGGGTTTTTGACCC
Found at i:961246 original size:80 final size:80
Alignment explanation
Indices: 961159--961473 Score: 307
Period size: 79 Copynumber: 4.0 Consensus size: 80
961149 CATTTTCTAG
* * *
961159 GGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCGAATTTTTCACCATTGGCGATACTCTAA
1 GGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCAAATTTTTCACCATTGGGGATACTCCAA
961224 CCCCACTATCTATGA
66 CCCCACTATCTATGA
* ** * * *
961239 GGGATACTCTAACCCCATTTTTACTTCCAAAATG--TTGAATTTCTCATCTTTGGGGATACTCCA
1 GGGATACTCCAACCCCATTTTTACTTCCAAAA-GCATCAAATTTTTCACCATTGGGGATACTCCA
* * *
961302 ACCCTACCATCTTTGA
65 ACCCCACTATCTATGA
*** * * * * * *
961318 GGGGATACTCCAACCTTGTTTTTACTTCCAAAA-TATTAAATCTTTCATC-TTGGTGATACTCTA
1 -GGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCAAATTTTTCACCATTGGGGATACTCCA
* *
961381 AACCCA-TCATCTCTGA
65 ACCCCACT-ATCTATGA
** * *
961397 GCGGATACTCCAACCCCGCTTTTACTTCTAAAAGCATCAAAATTTTCACCATTGGGGATACTCCA
1 G-GGATACTCCAACCCCATTTTTACTTCCAAAAGCATCAAATTTTTCACCATTGGGGATACTCCA
*
961462 ACCCCATTATCT
65 ACCCCACTATCT
961474 CCGTTTTTAC
Statistics
Matches: 191, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.01
79 86 0.45
80 81 0.42
81 22 0.12
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (80 bp):
GGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCAAATTTTTCACCATTGGGGATACTCCAA
CCCCACTATCTATGA
Found at i:961420 original size:79 final size:77
Alignment explanation
Indices: 961159--961429 Score: 267
Period size: 80 Copynumber: 3.4 Consensus size: 77
961149 CATTTTCTAG
* * *
961159 GGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCGAATTTTTCACCATTGGCGATACTCTAA
1 GGGATACTCCAACCCCATTTTTACTTCCAAAA-TATTGAA-TTTTCATCATTGGCGATACTCTAA
*
961224 CCCCACTATCTATGA
64 ACCCAC-ATCTATGA
* * * * *
961239 GGGATACTCTAACCCCATTTTTACTTCCAAAATGTTGAATTTCTCATCTTTGGGGATACTC-CAA
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATTGAATTT-TCATCATTGGCGATACTCTAAA
*
961303 CCCTACCATCTTTGA
65 CCC-A-CATCTATGA
*** * *
961318 GGGGATACTCCAACCTTGTTTTTACTTCCAAAATATTAAATCTTTCATC-TTGGTGATACTCTAA
1 -GGGATACTCCAACCCCATTTTTACTTCCAAAATATTGAAT-TTTCATCATTGGCGATACTCTAA
*
961382 ACCCATCATCTCTGA
64 ACCCA-CATCTATGA
** *
961397 GCGGATACTCCAACCCCGCTTTTACTTCTAAAA
1 G-GGATACTCCAACCCCATTTTTACTTCCAAAA
961430 GCATCAAAAT
Statistics
Matches: 160, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
78 8 0.05
79 74 0.46
80 76 0.47
81 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (77 bp):
GGGATACTCCAACCCCATTTTTACTTCCAAAATATTGAATTTTCATCATTGGCGATACTCTAAAC
CCACATCTATGA
Found at i:961454 original size:160 final size:160
Alignment explanation
Indices: 961133--961465 Score: 390
Period size: 160 Copynumber: 2.1 Consensus size: 160
961123 CTTCTTAGCA
* *
961133 GATACTCCAACCCTACCATTTTCTAGGGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCGA
1 GATACTCCAACCCTACCATTTTCGAGGGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCAA
* * * *
961198 ATTTTTCACCATTGGCGATACTCTAACCCCACTATCTATGAGGGATACTCTAACCCCATTTTTAC
66 ATCTTTCACCATTGGCGATACTCTAAACCCACTATCTATGAGGGATACTCCAACCCCACTTTTAC
** * *
961263 TTCCAAAATGTTGAATTTCTCATCTTTGGG
131 TTCCAAAATGTAAAATTTCTCACCATTGGG
*** * *
961293 GATACTCCAACCCTACCATCTTT-GAGGGGATACTCCAACCTTGTTTTTACTTCCAAAA-TATTA
1 GATACTCCAACCCTACCAT-TTTCGAGGGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCA
* * * *
961356 AATCTTTCATC-TTGGTGATACTCTAAACCCA-TCATCTCTGAGCGGATACTCCAACCCCGCTTT
65 AATCTTTCACCATTGGCGATACTCTAAACCCACT-ATCTATGAG-GGATACTCCAACCCCACTTT
*
961419 TACTTCTAAAA-GCATCAAAATTT-TCACCATTGGG
128 TACTTCCAAAATG--T-AAAATTTCTCACCATTGGG
961453 GATACTCCAACCC
1 GATACTCCAACCC
961466 CATTATCTCC
Statistics
Matches: 147, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
157 1 0.01
158 27 0.18
159 38 0.26
160 73 0.50
161 8 0.05
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.32
Consensus pattern (160 bp):
GATACTCCAACCCTACCATTTTCGAGGGGATACTCCAACCCCATTTTTACTTCCAAAAGCATCAA
ATCTTTCACCATTGGCGATACTCTAAACCCACTATCTATGAGGGATACTCCAACCCCACTTTTAC
TTCCAAAATGTAAAATTTCTCACCATTGGG
Found at i:961612 original size:79 final size:78
Alignment explanation
Indices: 961474--961876 Score: 413
Period size: 79 Copynumber: 5.1 Consensus size: 78
961464 CCCATTATCT
* * * *
961474 CCGTTTTTACTTCCAAAATATTTAATTTTTCATCTCGAGGATACTCCAATCCTACCATTTTCGAG
1 CCGTTTTTACTTCCAAAATATTGAATTTTTCATCTCGAGGATACTCC-ACCCCAACATTTTCGAG
961539 GGGATACTCCAACC
65 GGGATACTCCAACC
* * *
961553 CCGTTTTTACTCCCAAAATATTGAATTTTTCATCTC-AGGGATACTCTAGCTCCAACA-TTTCTG
1 CCGTTTTTACTTCCAAAATATTGAATTTTTCATCTCGA-GGATACTCCA-CCCCAACATTTTC-G
961616 A-GGGATACTCCAACC
63 AGGGGATACTCCAACC
* * * * * **
961631 CTGTTTTTACTTCCAAAATATTAAATTTTTTCATCTTGAGCATACTCCACCCCACCATTTTTTAG
1 CCGTTTTTACTTCCAAAATATTGAA-TTTTTCATCTCGAGGATACTCCACCCCAACATTTTCGAG
961696 GGGATACTCCAACC
65 GGGATACTCCAACC
* * * *
961710 CCATTTTTACTTCCAAAATATT-AATTTTTTTCATCTTGGGGATACTCCAACCCCAACATTTTTG
1 CCGTTTTTACTTCCAAAATATTGAA--TTTTTCATCTCGAGGATACTCC-ACCCCAACATTTTCG
*
961774 AGGGGAAACTCCAACC
63 AGGGGATACTCCAACC
* * * * * * *
961790 CCGTTTTTACTTCCAAAATGTTGAATTTTACAT-TATGGGGATACTCCAACCCC-ACTATCTCCA
1 CCGTTTTTACTTCCAAAATATTGAATTTTTCATCT-CGAGGATACTCC-ACCCCAAC-ATTTTCG
*
961853 AGGGGATACTCCAATC
63 AGGGGATACTCCAACC
*
961869 CCGATTTT
1 CCGTTTTT
961877 CACTAAAAAT
Statistics
Matches: 278, Mismatches: 34, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
78 54 0.19
79 173 0.62
80 49 0.18
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (78 bp):
CCGTTTTTACTTCCAAAATATTGAATTTTTCATCTCGAGGATACTCCACCCCAACATTTTCGAGG
GGATACTCCAACC
Found at i:961658 original size:78 final size:78
Alignment explanation
Indices: 961474--961818 Score: 424
Period size: 79 Copynumber: 4.4 Consensus size: 78
961464 CCCATTATCT
* * * * *
961474 CCGTTTTTACTTCCAAAATATTTAATTTTTCATCTCGAGGATACTCCAATCCTACCATTTTCGAG
1 CCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCGAGGATACTCC-ACCCCAACATTTTTGAG
961539 GGGATACTCCAACC
65 GGGATACTCCAACC
* * * * *
961553 CCGTTTTTACTCCCAAAATATTGAATTTTTCATCTC-AGGGATACTCTAGCTCCAACATTTCTGA
1 CCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCGA-GGATACTCCA-CCCCAACATTTTTGA
961617 -GGGATACTCCAACC
64 GGGGATACTCCAACC
* * * * *
961631 CTGTTTTTACTTCCAAAATATTAAATTTTTTCATCTTGAGCATACTCCACCCCACCATTTTTTAG
1 CCGTTTTTACTTCCAAAATATTAAA-TTTTTCATCTCGAGGATACTCCACCCCAACATTTTTGAG
961696 GGGATACTCCAACC
65 GGGATACTCCAACC
* * * *
961710 CCATTTTTACTTCCAAAATATTAATTTTTTTCATCTTGGGGATACTCCAACCCCAACATTTTTGA
1 CCGTTTTTACTTCCAAAATATTAA-ATTTTTCATCTCGAGGATACTCC-ACCCCAACATTTTTGA
*
961775 GGGGAAACTCCAACC
64 GGGGATACTCCAACC
* *
961790 CCGTTTTTACTTCCAAAATGTTGAATTTT
1 CCGTTTTTACTTCCAAAATATTAAATTTT
961819 ACATTATGGG
Statistics
Matches: 228, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
78 49 0.21
79 129 0.57
80 50 0.22
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.37
Consensus pattern (78 bp):
CCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCGAGGATACTCCACCCCAACATTTTTGAGG
GGATACTCCAACC
Found at i:961836 original size:158 final size:157
Alignment explanation
Indices: 961474--961876 Score: 497
Period size: 157 Copynumber: 2.5 Consensus size: 157
961464 CCCATTATCT
* * * * *
961474 CCGTTTTTACTTCCAAAATATTTAATTTTTCATCTCGAGGATACTCCAATCCTACCATTTTCGAG
1 CCGTTTTTACTTCCAAAATATTAAATTTTTCATCTTGAGGATACTCCAACCCCACCATTTTCAAG
* * * *
961539 GGGATACTCCAACCCCGTTTTTACTCCCAAAATATTGAATTTTTCATCTCAGGGATACTCTAGCT
66 GGGATACTCCAACCCCATTTTTACTCCCAAAATATTGAATTTTTCATCTCAGGGATACTCCAACC
*
961604 CCAACATTTCTGAGGGATACTCCAACC
131 CCAACATTTCTGAGGGAAACTCCAACC
* * **
961631 CTGTTTTTACTTCCAAAATATTAAATTTTTTCATCTTGAGCATACTCC-ACCCCACCATTTTTTA
1 CCGTTTTTACTTCCAAAATATTAAA-TTTTTCATCTTGAGGATACTCCAACCCCACCATTTTCAA
* **
961695 GGGGATACTCCAACCCCATTTTTACTTCCAAAATATT-AATTTTTTTCATCTTGGGGATACTCCA
65 GGGGATACTCCAACCCCATTTTTACTCCCAAAATATTGAA--TTTTTCATCTCAGGGATACTCCA
*
961759 ACCCCAACATTTTTGAGGGGAAACTCCAACC
128 ACCCCAACATTTCTGA-GGGAAACTCCAACC
* * * * * * *
961790 CCGTTTTTACTTCCAAAATGTTGAATTTTACAT-TATGGGGATACTCCAACCCCACTATCTCCAA
1 CCGTTTTTACTTCCAAAATATTAAATTTTTCATCT-TGAGGATACTCCAACCCCACCATTTTCAA
*
961854 GGGGATACTCCAATCCCGATTTT
65 GGGGATACTCCAA-CCCCATTTT
961877 CACTAAAAAT
Statistics
Matches: 210, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
156 2 0.01
157 71 0.34
158 70 0.33
159 59 0.28
160 8 0.04
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (157 bp):
CCGTTTTTACTTCCAAAATATTAAATTTTTCATCTTGAGGATACTCCAACCCCACCATTTTCAAG
GGGATACTCCAACCCCATTTTTACTCCCAAAATATTGAATTTTTCATCTCAGGGATACTCCAACC
CCAACATTTCTGAGGGAAACTCCAACC
Found at i:963147 original size:262 final size:260
Alignment explanation
Indices: 962656--963156 Score: 822
Period size: 262 Copynumber: 1.9 Consensus size: 260
962646 TATGAATTTC
962656 AATAGGCACCCGATCTTGCCTAGCCAAAGTGATCAGTGGTGACTCCAAGTTTATGGCCACTTTGT
1 AATAGGCACCCGATCTTGCCTAGCCAAAGTGATCAGTGGTGACTCCAAGTTTATGGCCACTTTGT
*
962721 CATGGCCATCCAAGACTAATCAGATGAGCGATTCATCCAACGATCTTTCACCCCTCCATATTGAA
66 CAAGGCCATCCAAGACTAATCAGATGAGCGATTCATCCAACGATCTTTCACCCCTCCATATTGAA
* * *
962786 CACCATCATCATATCAATCATCATCATTTATTTAAGTTGGGCGCGTTTTGGCCCCTCGGATCATC
131 CACCATCATCACATCAATCATCATCATTTATTTAAGTTGAGCGCATTTTGGCCCCTCGGATCATC
* * *
962851 TGAACTAAAAGGCCGAGCATGTGGCGATAGGGAGATCAAAGGTATTTATGAAATCTAAGTTATTA
196 TGAACTAAAAGGCCAAGCACGTGGCGAAAGGGAGATCAAAGGTATTTATGAAATCTAAGTTATTA
* * * *
962916 AATAGGCACCTGATCTTGCCTGGCCAAAAGTGATCGGTGGTGACTCCAAGTTTATGGTCACTTTG
1 AATAGGCACCCGATCTTGCCTAGCC-AAAGTGATCAGTGGTGACTCCAAGTTTATGGCCACTTTG
* * *
962981 TCACAGGCCATCCAAGACTAATCAGATGAGCGATTCATCCGACGGTCTTTCACCGCTCCATATTG
65 TCA-AGGCCATCCAAGACTAATCAGATGAGCGATTCATCCAACGATCTTTCACCCCTCCATATTG
*
963046 AACACCATCATCACATCAATCATCATCATTTATTTAAGTTGAGCGCATTTTGGCCCCTCGTATCA
129 AACACCATCATCACATCAATCATCATCATTTATTTAAGTTGAGCGCATTTTGGCCCCTCGGATCA
* * *
963111 TCTGAACTTAAAGGTCAAGCACGTGGCGAAAGGGAGATCCAAGGTA
194 TCTGAACTAAAAGGCCAAGCACGTGGCGAAAGGGAGATCAAAGGTA
963157 AAAGGAAGAT
Statistics
Matches: 221, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
260 23 0.10
261 40 0.18
262 158 0.71
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (260 bp):
AATAGGCACCCGATCTTGCCTAGCCAAAGTGATCAGTGGTGACTCCAAGTTTATGGCCACTTTGT
CAAGGCCATCCAAGACTAATCAGATGAGCGATTCATCCAACGATCTTTCACCCCTCCATATTGAA
CACCATCATCACATCAATCATCATCATTTATTTAAGTTGAGCGCATTTTGGCCCCTCGGATCATC
TGAACTAAAAGGCCAAGCACGTGGCGAAAGGGAGATCAAAGGTATTTATGAAATCTAAGTTATTA
Found at i:963683 original size:21 final size:21
Alignment explanation
Indices: 963630--963686 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
963620 TTTTGCCTAG
*
963630 ATGTATCGATAAATGCCTTCC
1 ATGTATCGATACATGCCTTCC
*
963651 ATGTATTGATACATGCCTTCC
1 ATGTATCGATACATGCCTTCC
963672 ATGTATCGATACATG
1 ATGTATCGATACATG
963687 GTCCCAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATGCCTTCC
Found at i:966411 original size:63 final size:63
Alignment explanation
Indices: 966312--966470 Score: 237
Period size: 63 Copynumber: 2.5 Consensus size: 63
966302 ATAATTGAAT
* ** * *
966312 TGTATTGATACATGGCAAATTGTATCGATACATTGAGCCCAATGGCTATAATTTCAAATGCAC
1 TGTATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATACAC
* *
966375 TGTATCGATACATGGTGAATTGTATCGAGACATTGAGCCCAATGGCTAGAATTTCAAATACAT
1 TGTATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATACAC
**
966438 TGTATCGATACATTATGAATTGTATCGATACAT
1 TGTATCGATACATGGTGAATTGTATCGATACAT
966471 AGGAGAGTGT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (63 bp):
TGTATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATACAC
Found at i:966481 original size:20 final size:20
Alignment explanation
Indices: 966438--966482 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
966428 TCAAATACAT
* *
966438 TGTATCGATACATTATGAAT
1 TGTATCGATACATTAGGAAG
966458 TGTATCGATACA-TAGGAGAG
1 TGTATCGATACATTAGGA-AG
966478 TGTAT
1 TGTAT
966483 GCACTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTAGGAAG
Found at i:966878 original size:35 final size:33
Alignment explanation
Indices: 966832--966958 Score: 134
Period size: 35 Copynumber: 3.8 Consensus size: 33
966822 TGATTGAGAG
*
966832 GTTCTATCTTAGACTTTGAAGAAGATAGGGAAGA
1 GTTCTATCTTAGACTATGAA-AAGATAGGGAAGA
* *
966866 TGTTCTATCTTAGCCTAAGAAAAGATAGGG-AG-
1 -GTTCTATCTTAGACTATGAAAAGATAGGGAAGA
* *
966898 GTTCTATCTTAGCCTATGAAAAAGATAAGGAAGA
1 GTTCTATCTTAGACTATG-AAAAGATAGGGAAGA
*
966932 GCTTCTATCTTA-ACCTTTGAAAAGATA
1 G-TTCTATCTTAGA-CTATGAAAAGATA
966959 AGGTTGTAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
31 17 0.21
32 10 0.12
33 4 0.05
34 18 0.22
35 31 0.39
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (33 bp):
GTTCTATCTTAGACTATGAAAAGATAGGGAAGA
Found at i:966938 original size:66 final size:66
Alignment explanation
Indices: 966829--966958 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
966819 AAGTGATTGA
* * * *
966829 GAGGTTCTATCTTAGACTTTGAAGAAGATAGGGAAGATGTTCTATCTTAGCCTAAGAAAAGATAG
1 GAGGTTCTATCTTAGACTATGAAAAAGATAAGGAAGATGTTCTATCTTAACCTAAGAAAAGATAG
966894 G
66 G
* **
966895 GAGGTTCTATCTTAGCCTATGAAAAAGATAAGGAAGA-GCTTCTATCTTAACCTTTGAAAAGATA
1 GAGGTTCTATCTTAGACTATGAAAAAGATAAGGAAGATG-TTCTATCTTAACCTAAGAAAAGATA
966959 AGGTTGTAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (66 bp):
GAGGTTCTATCTTAGACTATGAAAAAGATAAGGAAGATGTTCTATCTTAACCTAAGAAAAGATAG
G
Found at i:971653 original size:67 final size:66
Alignment explanation
Indices: 971570--971695 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 66
971560 GAAGGAGAAT
* *
971570 ATTCATAAAAGGGGAGAAATAGAGAATCTTTCATTAAGGGGGAGAATATTCATATTCATTAAATA
1 ATTCACAAAAAGGGAGAAATAGAGAATCTTTCATTAA-GGGGAGAATATTCATATTCATTAAATA
971635 AA
65 AA
* * *
971637 ATTCACAAAAAGGGAGAAATAGGGAATTTTTCGTTAAGGGGAGAATATTCATATTCATT
1 ATTCACAAAAAGGGAGAAATAGAGAATCTTTCATTAAGGGGAGAATATTCATATTCATT
971696 GGTACTGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 22 0.41
67 32 0.59
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (66 bp):
ATTCACAAAAAGGGAGAAATAGAGAATCTTTCATTAAGGGGAGAATATTCATATTCATTAAATAA
A
Found at i:972537 original size:63 final size:63
Alignment explanation
Indices: 972438--972596 Score: 237
Period size: 63 Copynumber: 2.5 Consensus size: 63
972428 ATAATTGAAT
* ** * *
972438 TGTATTGATACATGGCAAATTGTATCGATACATTGAGCCCAATGGCTATAATTTCAAATGCAC
1 TGTATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATACAC
* *
972501 TGTATCGATACATGGTGAATTGTATCGAGACATTGAGCCCAATGGCTAGAATTTCAAATACAT
1 TGTATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATACAC
**
972564 TGTATCGATACATTATGAATTGTATCGATACAT
1 TGTATCGATACATGGTGAATTGTATCGATACAT
972597 AGGAGAGTGT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (63 bp):
TGTATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCTAGAATTTCAAATACAC
Found at i:972607 original size:20 final size:20
Alignment explanation
Indices: 972564--972608 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
972554 TCAAATACAT
* *
972564 TGTATCGATACATTATGAAT
1 TGTATCGATACATTAGGAAG
972584 TGTATCGATACA-TAGGAGAG
1 TGTATCGATACATTAGGA-AG
972604 TGTAT
1 TGTAT
972609 GCACTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTAGGAAG
Found at i:973040 original size:36 final size:35
Alignment explanation
Indices: 972951--973018 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
972941 GAAGTGATTG
972951 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
972986 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAGGG
1 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
973019 TTGTAAGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 11 0.33
35 22 0.67
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
Found at i:974005 original size:9 final size:9
Alignment explanation
Indices: 973991--974022 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
973981 GCAATCAATC
973991 AAAAAAAGA
1 AAAAAAAGA
974000 AAAAAAAG-
1 AAAAAAAGA
974008 -AAAAAAGA
1 AAAAAAAGA
974016 AAAAAAA
1 AAAAAAA
974023 TGACTGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:974013 original size:16 final size:16
Alignment explanation
Indices: 973992--974022 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
973982 CAATCAATCA
973992 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
974008 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
974023 TGACTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:978849 original size:13 final size:13
Alignment explanation
Indices: 978831--978856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
978821 CAATTTTTTG
978831 TGTATCGATACAT
1 TGTATCGATACAT
978844 TGTATCGATACAT
1 TGTATCGATACAT
978857 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:979605 original size:21 final size:21
Alignment explanation
Indices: 979564--979607 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
979554 CTCCCCTTTA
* *
979564 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
979585 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
979606 TC
1 TC
979608 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:981427 original size:13 final size:13
Alignment explanation
Indices: 981409--981447 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
981399 ATAATCACCC
981409 TGTATCGATACAA
1 TGTATCGATACAA
981422 TGTATCGATACAA
1 TGTATCGATACAA
981435 TGTATCGATACAA
1 TGTATCGATACAA
981448 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:983530 original size:15 final size:15
Alignment explanation
Indices: 983510--983539 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
983500 GTTCATCAAT
983510 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
983525 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
983540 CCCAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:985369 original size:21 final size:21
Alignment explanation
Indices: 985340--985384 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
985330 AAGTTTTCAT
*
985340 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
985360 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
985382 TTT
1 TTT
985385 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:987593 original size:13 final size:13
Alignment explanation
Indices: 987575--987600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
987565 CAATTTTTTG
987575 TGTATCGATACAT
1 TGTATCGATACAT
987588 TGTATCGATACAT
1 TGTATCGATACAT
987601 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:988328 original size:24 final size:25
Alignment explanation
Indices: 988279--988328 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
988269 GCCTCTACAT
* *
988279 AAATCAACACCAAACACATCATAAA
1 AAATCAACACAAAACACATCAGAAA
988304 AAATC-ACACAAAACTACATC-GAAA
1 AAATCAACACAAAAC-ACATCAGAAA
988328 A
1 A
988329 TCATAAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.60, C:0.26, G:0.02, T:0.12
Consensus pattern (25 bp):
AAATCAACACAAAACACATCAGAAA
Found at i:990951 original size:40 final size:40
Alignment explanation
Indices: 990861--990966 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
990851 TAATCAGATG
* * * *
990861 AAACTAACAAGTCAACAAATGAGAAGGGTTGATCGAGACA
1 AAACTAATAAGTCAACAAATAAAAAGAGTTGATCGAGACA
* * * *
990901 AAA-TCGATAAGTCAATAGATAAAAAGAGTTGATCGGGACA
1 AAACT-AATAAGTCAACAAATAAAAAGAGTTGATCGAGACA
*
990941 AAACTAATAAGTCAACAAATGAAAAG
1 AAACTAATAAGTCAACAAATAAAAAG
990967 GGAGGACCAA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
39 1 0.02
40 50 0.96
41 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (40 bp):
AAACTAATAAGTCAACAAATAAAAAGAGTTGATCGAGACA
Found at i:991222 original size:40 final size:41
Alignment explanation
Indices: 991177--991346 Score: 141
Period size: 41 Copynumber: 4.2 Consensus size: 41
991167 ACAAAAATGG
* * *
991177 CAAGTCAACAAGTTAGAAAGTTTGA-TAGGATGAAACCATA
1 CAAGTCAATAAGTTAGAAAGATTGACCAGGATGAAACCATA
* * ** *
991217 TAAGTC-ATGAGTTAGAAAGATTGACCAGGACAAAATCATA
1 CAAGTCAATAAGTTAGAAAGATTGACCAGGATGAAACCATA
* *
991257 CAAGTCAATAAGTTA-AAAGGGTTAACCAGGATGAAACCATA
1 CAAGTCAATAAGTTAGAAA-GATTGACCAGGATGAAACCATA
** * * * * *
991298 CAAGTCAGCAACTTA-AAGGGGTTAACCAAGATGAAACCATA
1 CAAGTCAATAAGTTAGAA-AGATTGACCAGGATGAAACCATA
991339 CAAGTCAA
1 CAAGTCAA
991347 CTTTGGGTGA
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 15 0.14
40 24 0.23
41 66 0.63
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.20
Consensus pattern (41 bp):
CAAGTCAATAAGTTAGAAAGATTGACCAGGATGAAACCATA
Found at i:991270 original size:80 final size:80
Alignment explanation
Indices: 991130--991304 Score: 187
Period size: 80 Copynumber: 2.2 Consensus size: 80
991120 GTTAATTGCG
* * * * *
991130 AACCATATTAGTTAATGAGTTAAAAGGGTTGATCAGGACAAAAATGGCAAGTCAACAAGTTAGAA
1 AACCATATAAG-TCATGAGTTAAAAGGATTGACCAGGACAAAAATGACAAGTCAACAAGTTA-AA
* * *
991195 A-GTTTGA-TAGGATGA
64 AGGGTTAACCAGGATGA
*
991210 AACCATATAAGTCATGAGTTAGAAA-GATTGACCAGGACAAAATCAT-ACAAGTCAATAAGTTAA
1 AACCATATAAGTCATGAGTTA-AAAGGATTGACCAGGACAAAA--ATGACAAGTCAACAAGTTAA
991273 AAGGGTTAACCAGGATGA
63 AAGGGTTAACCAGGATGA
*
991291 AACCATACAAGTCA
1 AACCATATAAGTCA
991305 GCAACTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
79 27 0.34
80 31 0.39
81 22 0.28
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.22
Consensus pattern (80 bp):
AACCATATAAGTCATGAGTTAAAAGGATTGACCAGGACAAAAATGACAAGTCAACAAGTTAAAAG
GGTTAACCAGGATGA
Found at i:991285 original size:41 final size:41
Alignment explanation
Indices: 991253--991347 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
991243 AGGACAAAAT
* *
991253 CATACAAGTCAATAAGTTAAAAGGGTTAACCAGGATGAAAC
1 CATACAAGTCAACAACTTAAAAGGGTTAACCAGGATGAAAC
* * *
991294 CATACAAGTCAGCAACTTAAAGGGGTTAACCAAGATGAAAC
1 CATACAAGTCAACAACTTAAAAGGGTTAACCAGGATGAAAC
991335 CATACAAGTCAAC
1 CATACAAGTCAAC
991348 TTTGGGTGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (41 bp):
CATACAAGTCAACAACTTAAAAGGGTTAACCAGGATGAAAC
Found at i:991517 original size:42 final size:40
Alignment explanation
Indices: 991443--991544 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 40
991433 ATCATAAGTA
991443 TCAACAAGTTAAAAGGGTTGACTAGGATGAAACCATATGAG
1 TCAACAAGTTAAAAGGGTTGACTA-GATGAAACCATATGAG
* *
991484 TCAACAAGTTAGAAAGGGTTGCCT-GATACGAAACCATATTAG
1 TCAACAAGTTA-AAAGGGTTGACTAGAT--GAAACCATATGAG
* *
991526 TCAACAAGTGAAAAAGGTT
1 TCAACAAGTTAAAAGGGTT
991545 AATCAGGACA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
40 3 0.06
41 18 0.33
42 33 0.61
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (40 bp):
TCAACAAGTTAAAAGGGTTGACTAGATGAAACCATATGAG
Found at i:991638 original size:39 final size:41
Alignment explanation
Indices: 991563--991649 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
991553 CAAAACTGAC
* *
991563 AAGTCAACAAATGAGAAAGGTTGACCAACATGAAACC-TAT
1 AAGTCAACAAATGAGAAAGGTTGAACAACATAAAACCATAT
* * * *
991603 AAGTCAACAAGTTAG-AGGGTTGAACAAGATAAAACCATAT
1 AAGTCAACAAATGAGAAAGGTTGAACAACATAAAACCATAT
991643 AAGTCAA
1 AAGTCAA
991650 TGAGTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
39 17 0.43
40 23 0.57
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (41 bp):
AAGTCAACAAATGAGAAAGGTTGAACAACATAAAACCATAT
Found at i:992295 original size:67 final size:66
Alignment explanation
Indices: 992003--992294 Score: 240
Period size: 66 Copynumber: 4.4 Consensus size: 66
991993 TCAATTAAAA
* * * * * * *
992003 GTGACCAAAGCAGAACCTAAGTCAAAAAGAGGTTGATCATAGTG-AAA-TCGATAAAATCAACTA
1 GTGACC-AAGCAAAACCTAAGTCAAAAAGGGGTTTAAC-TAGGGCAAACTTGATAAAGTCAACTA
992066 AGG
64 AGG
* * * *
992069 GTGATCAAG-ATGAAACCTAAGTCAAAAAGGGGTTGACCAAGGTG-AAA-TTGATAAAGTCAA-T
1 GTGACCAAGCA--AAACCTAAGTCAAAAAGGGGTTTAACTAGG-GCAAACTTGATAAAGTCAACT
992130 GAAGG
63 -AAGG
* * * * * * *
992135 ATGACTAAGTTAGAACCTAAGTCTAAAAGGGG-TTAACTAGGCCAAAAC-TGATAAAGCCAACTA
1 GTGACCAAG-CAAAACCTAAGTCAAAAAGGGGTTTAACTAGGGC-AAACTTGATAAAGTCAACTA
992198 AGG
64 AGG
* * *
992201 GTTACCAGGGCAAAACTTAAGTCAAAAAGGGGTTTAACTAGGGCAAACTTGATAAAGTCAACTAA
1 GTGACCA-AGCAAAACCTAAGTCAAAAAGGGGTTTAACTAGGGCAAACTTGATAAAGTCAACTAA
992266 GG
65 GG
* *
992268 GTGACCAAGCAAAACCTACGTAAAAAA
1 GTGACCAAGCAAAACCTAAGTCAAAAA
992295 ATGTTGACTA
Statistics
Matches: 180, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
64 1 0.01
65 12 0.07
66 131 0.73
67 35 0.19
68 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (66 bp):
GTGACCAAGCAAAACCTAAGTCAAAAAGGGGTTTAACTAGGGCAAACTTGATAAAGTCAACTAAG
G
Found at i:994771 original size:18 final size:19
Alignment explanation
Indices: 994730--994771 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
994720 CTTATATGTA
994730 TTGATACAATTTGCTTTGT
1 TTGATACAATTTGCTTTGT
* * *
994749 ATGATACATTTTGGTTT-T
1 TTGATACAATTTGCTTTGT
994767 TTGAT
1 TTGAT
994772 CCAAATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (19 bp):
TTGATACAATTTGCTTTGT
Found at i:1003402 original size:62 final size:61
Alignment explanation
Indices: 1003290--1003930 Score: 415
Period size: 62 Copynumber: 10.4 Consensus size: 61
1003280 TTTTTCTTCA
* *
1003290 AAGTCCACAACTCTGTGGCACC--TT-TTTTAAAGTCCACAACTCCATTGCACC-CTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACCTCTTTTT
* **
1003347 AAGTCCACAACTCTGTGGCACCTGTTTTCTTTTTAAGTCCATAACTCTGTGGCACC-CTTTTT
1 AAGTCCACAACTCTGTGGCACC--TTTTCTTTTTAAGTCCACAACTCCATGGCACCTCTTTTT
* * ** *
1003409 AAGTCTATAACTCCATGGCACCCTTTT-TTTTTAAGTCTACAACTCCATGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTCTTTTTAAGTCCACAACTCCATGGCACC----TCTTTT
1003473 T
61 T
* * * * *
1003474 AAGTCTACAACTCCGTGGCACAATTTT-TCTTTTAAGTCCACAACTCTATGGCACCTTTTTTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTCT-TTTTAAGTCCACAACTCCATGGCACC--TCTTTTT
* * *
1003538 AAAGTCCACAACT-TCGTGGCACCCTTTTTCTTTTTAAGACCATAACTCCATGGTACC-C-TTTT
1 -AAGTCCACAACTCT-GTGGCA-CC-TTTTCTTTTTAAGTCCACAACTCCATGGCACCTCTTTTT
* *
1003600 AAGTCCACAACTCCGTGGCACC----CTTTTTAAGTCCACAACTCCTTGGCACCTTTTTTTCTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACC------TCTTT
1003661 TT
60 TT
* * *
1003663 AAGTCCATAACT-TCATGGCACC----C-TTTTAAATCCACAACTCCATGGCACCTTTTTTCTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACC-----TCTTT
1003722 TT
60 TT
* ***
1003724 AAGTCCATAACT-TCGTGGCACC----CTTTTTAAGTCCACAACTTTTTGGCACCTTTTTTTCTT
1 AAGTCCACAACTCT-GTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACC------TCTT
1003784 TTT
59 TTT
*
1003787 AAGTTCACAACTCTGTGGCACCTTTTTCTTTTTAAGTCCACAACTCCATGGCACC-C-TTTT
1 AAGTCCACAACTCTGTGGCACC-TTTTCTTTTTAAGTCCACAACTCCATGGCACCTCTTTTT
** ** * * **
1003847 AAGTCCATGACTCCATGGCACCTTTT-TTTTAAAGTCCATAACTCTGTGGCACC-CTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACCTCTTTTT
*
1003906 AAGTCCACAACT-TCATGGCACCTTT
1 AAGTCCACAACTCT-GTGGCACCTTT
1003931 CAAAGTCCAC
Statistics
Matches: 487, Mismatches: 59, Indels: 74
0.79 0.10 0.12
Matches are distributed among these distances:
55 24 0.05
57 22 0.05
58 24 0.05
59 29 0.06
60 46 0.09
61 59 0.12
62 95 0.20
63 55 0.11
64 10 0.02
65 46 0.09
66 51 0.10
67 1 0.00
68 25 0.05
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.38
Consensus pattern (61 bp):
AAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACCTCTTTTT
Found at i:1003434 original size:90 final size:89
Alignment explanation
Indices: 1003290--1003717 Score: 425
Period size: 90 Copynumber: 4.6 Consensus size: 89
1003280 TTTTTCTTCA
* * *
1003290 AAGTCCACAACTCTGTGGCACCTTTTTTAAAGTCCACAACTCCATTGCACCCTTTTTAAGTCCAC
1 AAGTCCATAACTCTGTGGCACCCTTTTT-AAGTCCACAACTCCATGGCACCCTTTTTAAGTCCAC
1003355 AACTCTGTGGCACCTGTTTTCTTTTT
65 AACTCTGTGGCACCT-TTTTCTTTTT
* *
1003381 AAGTCCATAACTCTGTGGCACCCTTTTTAAGTCTATAACTCCATGGCACCCTTTTTTTTTAAGTC
1 AAGTCCATAACTCTGTGGCACCCTTTTTAAGTCCACAACTCCATGGCACCC----TTTTTAAGTC
* **
1003446 TACAACTCCATGGCACCTTTTTCTTTTT
62 CACAACTCTGTGGCACCTTTTTCTTTTT
* * * ** * *
1003474 AAGTCTACAACTCCGTGGCACAATTTTTCTTTTAAGTCCACAACTCTATGGCACCTTTTTTTTTA
1 AAGTCCATAACTCTGTGGCAC----CCT-TTTTAAGTCCACAACTCCATGGCACC---CTTTTT-
1003539 AAGTCCACAACT-TCGTGGCACCCTTTTTCTTTTT
57 AAGTCCACAACTCT-GTGGCA-CCTTTTTCTTTTT
* ** * *
1003573 AAGACCATAACTCCATGGTACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACA
1 AAGTCCATAACTCTGTGGCACCCTTTTTAAGTCCACAACTCCATGGCACCCTTTTTAAGTCCACA
1003637 ACTCCT-TGGCACCTTTTTTTCTTTTT
66 ACT-CTGTGGCACC--TTTTTCTTTTT
* * *
1003663 AAGTCCATAACT-TCATGGCACCC-TTTTAAATCCACAACTCCATGGCACCTTTTTT
1 AAGTCCATAACTCT-GTGGCACCCTTTTTAAGTCCACAACTCCATGGCACCCTTTTT
1003718 CTTTTTAAGT
Statistics
Matches: 281, Mismatches: 36, Indels: 41
0.78 0.10 0.11
Matches are distributed among these distances:
88 2 0.01
89 17 0.06
90 84 0.30
91 27 0.10
93 52 0.19
94 25 0.09
97 6 0.02
98 39 0.14
99 29 0.10
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (89 bp):
AAGTCCATAACTCTGTGGCACCCTTTTTAAGTCCACAACTCCATGGCACCCTTTTTAAGTCCACA
ACTCTGTGGCACCTTTTTCTTTTT
Found at i:1003478 original size:33 final size:33
Alignment explanation
Indices: 1003290--1003930 Score: 450
Period size: 28 Copynumber: 20.8 Consensus size: 33
1003280 TTTTTCTTCA
** *
1003290 AAGTCCACAACTCTGTGGCACC---TT-TTTTA
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
1003319 AAGTCCACAACTCCATTGCACC-----CTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
**
1003347 AAGTCCACAACTCTGTGGCACCTGTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACCT-TTTTCTTTTT
* **
1003381 AAGTCCATAACTCTGTGGCACC-----CTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* * *
1003409 AAGTCTATAACTCCATGGCACCCTTTT-TTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
1003441 AAGTCTACAACTCCATGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* * *
1003474 AAGTCTACAACTCCGTGGCACAATTTTTC-TTTT
1 AAGTCCACAACTCCATGGCAC-CTTTTTCTTTTT
* *
1003507 AAGTCCACAACTCTATGGCACCTTTTT-TTTTA
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* *
1003539 AAGTCCACAACTTCGTGGCACCCTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCA-CCTTTTTCTTTTT
* * *
1003573 AAGACCATAACTCCATGGTACC-----C-TTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
1003600 AAGTCCACAACTCCGTGGCACC-----CTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
1003628 AAGTCCACAACTCCTTGGCACCTTTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACC--TTTTTCTTTTT
* *
1003663 AAGTCCATAACTTCATGGCACC-----C-TTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
1003690 AAATCCACAACTCCATGGCACCTTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACC-TTTTTCTTTTT
* * *
1003724 AAGTCCATAACTTCGTGGCACC-----CTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
***
1003752 AAGTCCACAACTTTTTGGCACCTTTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACC--TTTTTCTTTTT
* **
1003787 AAGTTCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
1003820 AAGTCCACAACTCCATGGCACC-----C-TTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
** *
1003847 AAGTCCATGACTCCATGGCACC-TTTT-TTTTA
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* **
1003878 AAGTCCATAACTCTGTGGCACC-----CTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
1003906 AAGTCCACAACTTCATGGCACCTTT
1 AAGTCCACAACTCCATGGCACCTTT
1003931 CAAAGTCCAC
Statistics
Matches: 500, Mismatches: 64, Indels: 94
0.76 0.10 0.14
Matches are distributed among these distances:
27 70 0.14
28 123 0.25
29 19 0.04
31 22 0.04
32 55 0.11
33 87 0.17
34 74 0.15
35 50 0.10
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.38
Consensus pattern (33 bp):
AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
Found at i:1003611 original size:27 final size:27
Alignment explanation
Indices: 1003569--1003944 Score: 187
Period size: 27 Copynumber: 12.6 Consensus size: 27
1003559 CCCTTTTTCT
* * *
1003569 TTTTAAGACCATAACTCCATGGTACCC
1 TTTTAAGTCCACAACTCCATGGCACCC
*
1003596 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCC
*
1003623 TTTTTAAGTCCACAACTCCTTGGCACCTTTTTTTC
1 -TTTTAAGTCCACAACTCCATGGCACC-------C
* *
1003658 TTTTTAAGTCCATAACTTCATGGCACCC
1 -TTTTAAGTCCACAACTCCATGGCACCC
*
1003686 TTTTAAATCCACAACTCCATGGCACCTTTTTTC
1 TTTTAAGTCCACAACTCCATGGCACC------C
* * *
1003719 TTTTTAAGTCCATAACTTCGTGGCACCC
1 -TTTTAAGTCCACAACTCCATGGCACCC
***
1003747 TTTTTAAGTCCACAACTTTTTGGCACCTTTTTTTC
1 -TTTTAAGTCCACAACTCCATGGCACC-------C
* **
1003782 TTTTTAAGTTCACAACTCTGTGGCACCTTTTTC
1 -TTTTAAGTCCACAACTCCATGGCACC-----C
1003815 TTTTTAAGTCCACAACTCCATGGCACCC
1 -TTTTAAGTCCACAACTCCATGGCACCC
** *
1003843 TTTTAAGTCCATGACTCCATGGCACCTTTT
1 TTTTAAGTCCACAACTCCATGGCACC---C
* **
1003873 TTTTAAAGTCCATAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCATGGCACCC
*
1003901 TTTTTAAGTCCACAACTTCATGGCA-CC
1 -TTTTAAGTCCACAACTCCATGGCACCC
*
1003928 TTTCAAAGTCCACAACT
1 TTT-TAAGTCCACAACT
1003945 TTGCGGCATC
Statistics
Matches: 285, Mismatches: 36, Indels: 56
0.76 0.10 0.15
Matches are distributed among these distances:
26 3 0.01
27 84 0.29
28 68 0.24
29 4 0.01
30 4 0.01
31 19 0.07
33 31 0.11
34 22 0.08
35 50 0.18
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGGCACCC
Found at i:1003875 original size:124 final size:123
Alignment explanation
Indices: 1003290--1003905 Score: 506
Period size: 124 Copynumber: 5.0 Consensus size: 123
1003280 TTTTTCTTCA
* *
1003290 AAGTCCACAACTCTGTGGCACC--TT-TTTTAAAGTCCACAACTCCATTGCACCCTTTTTAAGTC
1 AAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACCCTTTTTAAGTC
* *
1003352 CACAACTCTGTGGCACCTGTTTTCTTTTTAAGTCCATAACTCTGTGGCACC------CTTTTT
66 CACAACTCCGTGGCACC----TT-TTTTTAAGTCCACAACTCTGTGGCACCTTTTTTCTTTTT
* * ** *
1003409 AAGTCTATAACTCCATGGCACCCTTTT-TTTTTAAGTCTACAACTCCATGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTCTTTTTAAGTCCACAACTCCATGGCACC-----CTTTT
* * *
1003473 TAAGTCTACAACTCCGTGGCACAATTTTTCTTTTAAGTCCACAACTCTATGGCACC-TTTTT-TT
60 TAAGTCCACAACTCCGTGGCAC---CTTT-TTTTAAGTCCACAACTCTGTGGCACCTTTTTTCTT
*
1003536 TTA
121 TTT
* * *
1003539 AAGTCCACAACT-TCGTGGCACCCTTTTTCTTTTTAAGACCATAACTCCATGGTACCC-TTTTAA
1 AAGTCCACAACTCT-GTGGCA-CC-TTTTCTTTTTAAGTCCACAACTCCATGGCACCCTTTTTAA
*
1003602 GTCCACAACTCCGTGGCACC-CTTTTTAAGTCCACAACTCCT-TGGCACCTTTTTTTCTTTTT
63 GTCCACAACTCCGTGGCACCTTTTTTTAAGTCCACAACT-CTGTGGCACC-TTTTTTCTTTTT
* * *
1003663 AAGTCCATAACT-TCATGGCACC----C-TTTTAAATCCACAACTCCATGGCACCTTTTTTCTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACC------CTTT
* * * * *
1003722 TTAAGTCCATAACTTCGTGGCACC-CTTTTTAAGTCCACAACTTTTTGGCACCTTTTTTTCTTTT
59 TTAAGTCCACAACTCCGTGGCACCTTTTTTTAAGTCCACAACTCTGTGGCACC-TTTTTTCTTTT
1003786 T
123 T
*
1003787 AAGTTCACAACTCTGTGGCACCTTTTTCTTTTTAAGTCCACAACTCCATGGCACCC-TTTTAAGT
1 AAGTCCACAACTCTGTGGCACC-TTTTCTTTTTAAGTCCACAACTCCATGGCACCCTTTTTAAGT
** * * *
1003851 CCATGACTCCATGGCACCTTTTTTTTAAAGTCCATAACTCTGTGGCACCCTTTTT
65 CCACAACTCCGTGGCACC-TTTTTTT-AAGTCCACAACTCTGTGGCACCTTTTTT
1003906 AAGTCCACAA
Statistics
Matches: 409, Mismatches: 46, Indels: 78
0.77 0.09 0.15
Matches are distributed among these distances:
117 22 0.05
118 1 0.00
119 16 0.04
120 2 0.00
121 23 0.06
122 29 0.07
123 32 0.08
124 102 0.25
125 12 0.03
126 69 0.17
127 26 0.06
129 1 0.00
130 47 0.11
131 4 0.01
132 23 0.06
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (123 bp):
AAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGCACCCTTTTTAAGTC
CACAACTCCGTGGCACCTTTTTTTAAGTCCACAACTCTGTGGCACCTTTTTTCTTTTT
Found at i:1003952 original size:27 final size:28
Alignment explanation
Indices: 1003877--1003952 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 28
1003867 CCTTTTTTTT
* * *
1003877 AAAGTCCATAACTCTGTGGCACCCTTTT
1 AAAGTCCACAACTTTGTGGCACCCTTTC
* **
1003905 TAAGTCCACAACTTCATGGCA-CCTTTC
1 AAAGTCCACAACTTTGTGGCACCCTTTC
*
1003932 AAAGTCCACAACTTTGCGGCA
1 AAAGTCCACAACTTTGTGGCA
1003953 TCTCTTTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
AAAGTCCACAACTTTGTGGCACCCTTTC
Found at i:1004057 original size:33 final size:33
Alignment explanation
Indices: 1003969--1004120 Score: 129
Period size: 33 Copynumber: 4.7 Consensus size: 33
1003959 TTAAAAGTCT
*
1003969 ACACAAG-TAGGTGGCAACCC-T-TC-AAAGCAC
1 ACACAAGTTA-GTGGCAACCCTTCTCTAAAGCCC
* * *
1003999 ACACAAGTCAATGGAAACCC-T-TCTAAAGCCC
1 ACACAAGTTAGTGGCAACCCTTCTCTAAAGCCC
* * *
1004030 ACATAAGTTAGTGGCAACCTTTCTCTAAAGCTC
1 ACACAAGTTAGTGGCAACCCTTCTCTAAAGCCC
* **
1004063 ATACAAGTCGGTGGCAACCCTTCT-TAAAAGCCC
1 ACACAAGTTAGTGGCAACCCTTCTCT-AAAGCCC
*
1004096 ACACAAGTTAGTGGCATCTCCTTCT
1 ACACAAGTTAGTGGCAAC-CCTTCT
1004121 AAGCCTAATG
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
30 18 0.19
31 22 0.23
32 2 0.02
33 48 0.50
34 6 0.06
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (33 bp):
ACACAAGTTAGTGGCAACCCTTCTCTAAAGCCC
Found at i:1004271 original size:54 final size:52
Alignment explanation
Indices: 1004196--1004329 Score: 146
Period size: 52 Copynumber: 2.6 Consensus size: 52
1004186 GATATCGCTG
* * * * *
1004196 GCCTTGAACCAACATATTGGCACCTTTCTCTCCTTTTTAAG-CCTAATGTCACTA
1 GCCTTGAATCAGCACATTGGCACC-TT-TATCATTTTTAAGTCC-AATGTCACTA
** * *
1004250 GTTTTGAATCAGCACGTTGGCACCTTTATCATTTTTAAGTCCAATGTCGCTA
1 GCCTTGAATCAGCACATTGGCACCTTTATCATTTTTAAGTCCAATGTCACTA
1004302 GCCTTGAATCAGCACATTGGCA-CTTTAT
1 GCCTTGAATCAGCACATTGGCACCTTTAT
1004330 TCTGTTGCAG
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
51 6 0.09
52 39 0.58
53 4 0.06
54 18 0.27
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (52 bp):
GCCTTGAATCAGCACATTGGCACCTTTATCATTTTTAAGTCCAATGTCACTA
Found at i:1011556 original size:150 final size:148
Alignment explanation
Indices: 1011278--1011652 Score: 633
Period size: 150 Copynumber: 2.5 Consensus size: 148
1011268 CAAGACTAAG
* * * * *
1011278 TTTTGGGAAAAAGGCTAAAAGGTCCCTAAGGTCTACCATCGACTTAGAAGTGCCCGGTGATCCTG
1 TTTTGGGAAAAATGCTAAATGGTCCATAAGGTCTACCATCGACTTAGAAGTGCCTGGTGATCCTA
1011343 TAGGACTTGAAAAAGTAAAATCGAACCTACGCCTAATACGTACCCTCGACATAAAAGCGACCCGG
66 TAGGACTTGAAAAAGTAAAATCGAACCTACGCCTAATACGTACCCTCGACATAAAAGCGACCCGG
1011408 TAGTTTCATAGGCCTAGA
131 TAGTTTCATAGGCCTAGA
1011426 TTTTGGGCAAAAAATGCTAAATGGTCCATAAGGTCTACCATCGACTTAGAAGTGCCTGGTGATCC
1 TTTTGGG--AAAAATGCTAAATGGTCCATAAGGTCTACCATCGACTTAGAAGTGCCTGGTGATCC
* *
1011491 TATAGGACTTGAAAAAGTAAAATCGAACCTACGCCTAATACGTACCCTTGATATAAAAGCGACCC
64 TATAGGACTTGAAAAAGTAAAATCGAACCTACGCCTAATACGTACCCTCGACATAAAAGCGACCC
1011556 GGTAGTTTCATAGGCCTAGA
129 GGTAGTTTCATAGGCCTAGA
*
1011576 TTTTGAGGGAAAAATGCTAAATGGTCCATAAGGTTTACCATCGACTTAGAAGTGCCTGGTGATCC
1 TTTT--GGGAAAAATGCTAAATGGTCCATAAGGTCTACCATCGACTTAGAAGTGCCTGGTGATCC
*
1011641 TAGAGGACTTGA
64 TATAGGACTTGA
1011653 TAAATATAAA
Statistics
Matches: 214, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
148 7 0.03
150 204 0.95
152 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (148 bp):
TTTTGGGAAAAATGCTAAATGGTCCATAAGGTCTACCATCGACTTAGAAGTGCCTGGTGATCCTA
TAGGACTTGAAAAAGTAAAATCGAACCTACGCCTAATACGTACCCTCGACATAAAAGCGACCCGG
TAGTTTCATAGGCCTAGA
Found at i:1012743 original size:13 final size:13
Alignment explanation
Indices: 1012725--1012750 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1012715 CTATTTATGA
1012725 TGTATCGATACAC
1 TGTATCGATACAC
1012738 TGTATCGATACAC
1 TGTATCGATACAC
1012751 ACAATTATGT
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:1012868 original size:22 final size:22
Alignment explanation
Indices: 1012840--1012896 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
1012830 ACAGTGACCT
*
1012840 ATGAACAGTTATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1012862 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1012884 ATGAACAGTGATG
1 ATGAACAGTGATG
1012897 AATAGTGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1012921 original size:78 final size:78
Alignment explanation
Indices: 1012818--1012992 Score: 334
Period size: 78 Copynumber: 2.3 Consensus size: 78
1012808 TAGTGATACG
*
1012818 TGAACAGTG-TGAACAGTGACCTATGAACAGTTATGTATCGATACATGAACAGTGATGTATCGAT
1 TGAATAGTGATGAACAGTGACCTATGAACAGTTATGTATCGATACATGAACAGTGATGTATCGAT
1012882 ACATGAACAGTGA
66 ACATGAACAGTGA
1012895 TGAATAGTGATGAACAGTGACCTATGAACAGTTATGTATCGATACATGAACAGTGATGTATCGAT
1 TGAATAGTGATGAACAGTGACCTATGAACAGTTATGTATCGATACATGAACAGTGATGTATCGAT
1012960 ACATGAACAGTGA
66 ACATGAACAGTGA
1012973 TGAATAGTGATGAACAGTGA
1 TGAATAGTGATGAACAGTGA
1012993 AAATGAGATT
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
77 8 0.08
78 88 0.92
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (78 bp):
TGAATAGTGATGAACAGTGACCTATGAACAGTTATGTATCGATACATGAACAGTGATGTATCGAT
ACATGAACAGTGA
Found at i:1012930 original size:10 final size:10
Alignment explanation
Indices: 1012884--1012914 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1012874 GTATCGATAC
1012884 ATGAACAGTG
1 ATGAACAGTG
*
1012894 ATGAATAGTG
1 ATGAACAGTG
1012904 ATGAACAGTG
1 ATGAACAGTG
1012914 A
1 A
1012915 CCTATGAACA
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:1012944 original size:22 final size:22
Alignment explanation
Indices: 1012918--1012974 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
1012908 ACAGTGACCT
*
1012918 ATGAACAGTTATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1012940 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1012962 ATGAACAGTGATG
1 ATGAACAGTGATG
1012975 AATAGTGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1012981 original size:10 final size:10
Alignment explanation
Indices: 1012962--1012992 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1012952 GTATCGATAC
1012962 ATGAACAGTG
1 ATGAACAGTG
*
1012972 ATGAATAGTG
1 ATGAACAGTG
1012982 ATGAACAGTG
1 ATGAACAGTG
1012992 A
1 A
1012993 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:1013080 original size:53 final size:53
Alignment explanation
Indices: 1013016--1013152 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1013006 CTACTTCCAA
1013016 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1013069 TGTATCGATACATATTATGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1013122 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1013153 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1013185 original size:20 final size:20
Alignment explanation
Indices: 1013122--1013192 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1013112 GCCAATGTCC
**
1013122 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1013142 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1013162 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1013182 TGTATCGATAC
1 TGTATCGATAC
1013193 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1013258 original size:21 final size:21
Alignment explanation
Indices: 1013232--1013272 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1013222 GTCAACCTTG
1013232 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1013253 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1013273 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:1016452 original size:44 final size:44
Alignment explanation
Indices: 1016368--1016715 Score: 219
Period size: 44 Copynumber: 7.9 Consensus size: 44
1016358 AAACGTAACA
* * ** * **
1016368 AGTTCGACCAAGGCTGAACCATCACGTTGAATGAGGATGAAAAG
1 AGTTTGACCAAGGCTAAACCATCACGTCAAACGAAAATGAAAAG
* * *
1016412 AGTTTGACCAGGGCTAAACCATCATGTCAAACGAAAATG-AACG
1 AGTTTGACCAAGGCTAAACCATCACGTCAAACGAAAATGAAAAG
* * * **
1016455 AAGTTTGACCAGGGCTAAACCAGCACGTCAAACAAAAATGAACGG
1 -AGTTTGACCAAGGCTAAACCATCACGTCAAACGAAAATGAAAAG
** * * * * *
1016500 AGTTTGA-GTAGGGTAGAACCATCACATCAAATGATAGTG-AAAG
1 AGTTTGACCAAGGCTA-AACCATCACGTCAAACGAAAATGAAAAG
* * * * * * *
1016543 TGGTTTGACCAAGGC-ATAACTACCATGTCAAATGAAAGTGAAAGG
1 -AGTTTGACCAAGGCTA-AACCATCACGTCAAACGAAAATGAAAAG
* * *
1016588 AGTTTGACTAAGG-TAAACCATCACGTCAAA-TAAGAATGAAAAA
1 AGTTTGACCAAGGCTAAACCATCACGTCAAACGAA-AATGAAAAG
* * *
1016631 AGTTTGACCAAGGCTAAACCATCACGTCAAA-TAGAAGTGAATAG
1 AGTTTGACCAAGGCTAAACCATCACGTCAAACGA-AAATGAAAAG
* * *
1016675 AGTTTAACCAAGG-TAGAACCAACGCGTCAAAC-AAATATGAA
1 AGTTTGACCAAGGCTA-AACCATCACGTCAAACGAAA-ATGAA
1016716 GGAAGTTTGA
Statistics
Matches: 236, Mismatches: 55, Indels: 26
0.74 0.17 0.08
Matches are distributed among these distances:
42 2 0.01
43 43 0.18
44 182 0.77
45 9 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (44 bp):
AGTTTGACCAAGGCTAAACCATCACGTCAAACGAAAATGAAAAG
Found at i:1016520 original size:88 final size:86
Alignment explanation
Indices: 1016404--1016725 Score: 261
Period size: 88 Copynumber: 3.7 Consensus size: 86
1016394 TTGAATGAGG
* * * * *
1016404 ATGAAAAGAGTTTGACCAGGGCTAAACCATCATGTCAAACGAAAATGAACGAAGTTTGACCAGGG
1 ATGAAAGGAGTTTGACTAGGG-TAAACCATCACGTCAAA-GAAAATGAAAGAAGTTTGACCAAGG
*
1016469 CTAAACCAGCACGTCAAACAAAA
64 CTAAACCACCACGTCAAACAAAA
* * * * * **
1016492 ATGAACGGAGTTTGAGTAGGGTAGAACCATCACATCAAATGATAGTGAAAGTGGTTTGACCAAGG
1 ATGAAAGGAGTTTGACTAGGGTA-AACCATCACGTCAAA-GAAAATGAAAGAAGTTTGACCAAGG
* * **
1016557 C-ATAACTACCATGTCAAATGAAA
64 CTA-AACCACCACGTCAAACAAAA
* * * *
1016580 GTGAAAGGAGTTTGACTAAGGTAAACCATCACGTCAAATAAGAATGAAAAAAGTTTGACCAAGGC
1 ATGAAAGGAGTTTGACTAGGGTAAACCATCACGTCAAAGAA-AATGAAAGAAGTTTGACCAAGGC
* * *
1016645 TAAACCATCACGTCAAATAGAA
65 TAAACCACCACGTCAAACAAAA
* * * * * * * *
1016667 GTGAATA-GAGTTTAACCAAGGTAGAACCAACGCGTCAAACAAATATGAAGGAAGTTTGA
1 ATGAA-AGGAGTTTGACTAGGGTA-AACCATCACGTCAAAGAAA-ATGAAAGAAGTTTGA
1016726 AGTAGGTATA
Statistics
Matches: 186, Mismatches: 41, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
86 1 0.01
87 71 0.38
88 114 0.61
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (86 bp):
ATGAAAGGAGTTTGACTAGGGTAAACCATCACGTCAAAGAAAATGAAAGAAGTTTGACCAAGGCT
AAACCACCACGTCAAACAAAA
Found at i:1017632 original size:16 final size:17
Alignment explanation
Indices: 1017600--1017633 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1017590 TTAAGTTGTT
*
1017600 AATTATCATTTAGCAAA
1 AATTATCATTGAGCAAA
1017617 AATTATC-TTGAGCAAA
1 AATTATCATTGAGCAAA
1017633 A
1 A
1017634 TTTCTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (17 bp):
AATTATCATTGAGCAAA
Found at i:1028730 original size:150 final size:149
Alignment explanation
Indices: 1028460--1028896 Score: 590
Period size: 150 Copynumber: 2.9 Consensus size: 149
1028450 GACCTATCCT
* * ** **
1028460 TAATACGTACCCTTGGCATAGAAGCAACCCAGTAGTTTCATAGGACTAAGTTTTA-A-GAAAAAT
1 TAATACATACCCTTGACATAGAAGTGACCCA-TAGTTTCATAGGGTTAAGTTTTAGAGGAAAAAT
** * * *
1028523 GCTAAAAGGTCTTTAAGGTCTACCATTAATTTAGAAGTGCCCATTGATCCTAGAGGACTTGAAAA
65 GCTAAAAGGTCCATAAGGTCTACCATCAACTTAGAAGTGCCCAGTGATCCTAGAGGACTTGAAAA
1028588 AGTAAAAGCAAACTTACGCC
130 AGTAAAAGCAAACTTACGCC
*
1028608 TAATACATACCCTCGACATAGAAGTGACCCATTAGTTTCATAGGGTTAAGTTTTAGAGGAAAAAT
1 TAATACATACCCTTGACATAGAAGTGACCCA-TAGTTTCATAGGGTTAAGTTTTAGAGGAAAAAT
* * * * *
1028673 GCTAAAAGGTCCCTAAAGTCTACCATCAACCTAGAAGTGCCCGGTGATCCTAAAGGACTTGAAAA
65 GCTAAAAGGTCCATAAGGTCTACCATCAACTTAGAAGTGCCCAGTGATCCTAGAGGACTTGAAAA
*
1028738 AGTAAAAGCGAACTTACGCC
130 AGTAAAAGCAAACTTACGCC
* * * *
1028758 TAATACATGCCCTTGACATAGAAGTGACCCGATAGTTTCATAAGGTTAGGTTTTAGAGGGAAAAT
1 TAATACATACCCTTGACATAGAAGTGACCC-ATAGTTTCATAGGGTTAAGTTTTAGAGGAAAAAT
* * *
1028823 GCTAAAAGGTCCATAAGGTCTACCATCAACTTAGAATTGCACTGTGATCCTAGAGGACTTGATAA
65 GCTAAAAGGTCCATAAGGTCTACCATCAACTTAGAAGTGCCCAGTGATCCTAGAGGACTTGA-AA
*
1028888 ATGTAAAAG
129 AAGTAAAAG
1028897 GATGACAAAC
Statistics
Matches: 254, Mismatches: 31, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
148 47 0.19
149 1 0.00
150 195 0.77
151 11 0.04
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (149 bp):
TAATACATACCCTTGACATAGAAGTGACCCATAGTTTCATAGGGTTAAGTTTTAGAGGAAAAATG
CTAAAAGGTCCATAAGGTCTACCATCAACTTAGAAGTGCCCAGTGATCCTAGAGGACTTGAAAAA
GTAAAAGCAAACTTACGCC
Found at i:1030488 original size:22 final size:22
Alignment explanation
Indices: 1030457--1030499 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1030447 AAGAGTTTGG
* *
1030457 TTTTTTTTTCTTTTTTTCTCTC
1 TTTTTCTTTCTTTCTTTCTCTC
1030479 TTTTTCTTTCTTTCTTTCTCT
1 TTTTTCTTTCTTTCTTTCTCT
1030500 TTGTTGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTCTTTCTTTCTCTC
Found at i:1031512 original size:70 final size:70
Alignment explanation
Indices: 1031430--1031586 Score: 269
Period size: 70 Copynumber: 2.2 Consensus size: 70
1031420 CTTGGAGGAA
* * *
1031430 TGGGGTTAGAGTATCCCTGATGATGACAATTTAAGTAAAAATAAGATTTACATTTTAATGAGTTT
1 TGGGGTTGGAGTATCCCTGATGATGACAATTTAAGCAAAAATAAGATTTAAATTTTAATGAGTTT
1031495 AAAAG
66 AAAAG
* *
1031500 TGGGGTTGGAGTATCCCTGATGATGACAATTTAAGCAAAACTAAGATTTAAATTTTGATGAGTTT
1 TGGGGTTGGAGTATCCCTGATGATGACAATTTAAGCAAAAATAAGATTTAAATTTTAATGAGTTT
1031565 AAAAG
66 AAAAG
1031570 TGGGGTTGGAGTATCCC
1 TGGGGTTGGAGTATCCC
1031587 CTTAGAGGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 82 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (70 bp):
TGGGGTTGGAGTATCCCTGATGATGACAATTTAAGCAAAAATAAGATTTAAATTTTAATGAGTTT
AAAAG
Found at i:1036009 original size:21 final size:20
Alignment explanation
Indices: 1035963--1036009 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
1035953 AAAAGATCTC
*
1035963 TAGAAC-TGTTAAAAATGCC
1 TAGAACATGTTAAAAATGCA
*
1035982 TAAAACATGTTTAAAAATGCA
1 TAGAACATG-TTAAAAATGCA
1036003 TAGAACA
1 TAGAACA
1036010 CACTTTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 16 0.70
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TAGAACATGTTAAAAATGCA
Found at i:1036745 original size:22 final size:21
Alignment explanation
Indices: 1036709--1036753 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1036699 GAATTCTCTC
* *
1036709 ATGATTTTTCCTTTTTTATTTT
1 ATGATTTTT-CATTTTGATTTT
*
1036731 ATGATTTTTTATTTTGATTTT
1 ATGATTTTTCATTTTGATTTT
1036752 AT
1 AT
1036754 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (21 bp):
ATGATTTTTCATTTTGATTTT
Found at i:1042794 original size:21 final size:21
Alignment explanation
Indices: 1042768--1042809 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1042758 GGCACATTTT
1042768 TGCCTA-CATGTAATCGATACA
1 TGCCTATCATGT-ATCGATACA
*
1042789 TGCCTATCATGTATTGATACA
1 TGCCTATCATGTATCGATACA
1042810 AGATCCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (21 bp):
TGCCTATCATGTATCGATACA
Found at i:1042914 original size:20 final size:20
Alignment explanation
Indices: 1042861--1042917 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1042851 TCAATATAAC
* * *
1042861 AAGTTAATGTATCAACACAT
1 AAGTGAATGTATCGATACAT
*
1042881 AAGTGAATATATCGATACAT
1 AAGTGAATGTATCGATACAT
1042901 AAGTGAATGTATCGATA
1 AAGTGAATGTATCGATA
1042918 TTGAACCTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (20 bp):
AAGTGAATGTATCGATACAT
Found at i:1043881 original size:20 final size:20
Alignment explanation
Indices: 1043850--1043897 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1043840 AATTTGCATT
*
1043850 GATACAATAAGTTAATATATC
1 GATAC-ATAAGTGAATATATC
*
1043871 GATACATAAGTGAATGTATC
1 GATACATAAGTGAATATATC
*
1043891 GGTACAT
1 GATACAT
1043898 GCTTGAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
GATACATAAGTGAATATATC
Found at i:1043981 original size:20 final size:21
Alignment explanation
Indices: 1043956--1044007 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1043946 TAGAAAATTA
1043956 TATCGATACATAAGTA-AATG
1 TATCGATACATAAGTATAATG
***
1043976 TATCGATACATGCTTATAATG
1 TATCGATACATAAGTATAATG
1043997 TATCGATACAT
1 TATCGATACAT
1044008 TTTTCATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (21 bp):
TATCGATACATAAGTATAATG
Found at i:1046899 original size:29 final size:29
Alignment explanation
Indices: 1046857--1047020 Score: 147
Period size: 29 Copynumber: 5.7 Consensus size: 29
1046847 GCCCATAAAT
1046857 ACATGTGAATTGGGCTCCACTCTTCTTGG
1 ACATGTGAATTGGGCTCCACTCTTCTTGG
** * *
1046886 ACATGTGAATTGGGCTCCAAGC--CATGAAT
1 ACATGTGAATTGGGCTCCACTCTTCTTG--G
***
1046915 ACATCCAAATTGGGCTCCACTCTTCTTGG
1 ACATGTGAATTGGGCTCCACTCTTCTTGG
** * *
1046944 ACATGTGAATTGGGCTCCAAGC--CATGAAA
1 ACATGTGAATTGGGCTCCACTCTTCTTG--G
**
1046973 ACATGCAAATTGGGCTCCACTCTTCTTGG
1 ACATGTGAATTGGGCTCCACTCTTCTTGG
1047002 ACATGTGAATTGGGCTCCA
1 ACATGTGAATTGGGCTCCA
1047021 TGTCATGAAT
Statistics
Matches: 101, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
27 6 0.06
29 89 0.88
31 6 0.06
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (29 bp):
ACATGTGAATTGGGCTCCACTCTTCTTGG
Found at i:1046944 original size:58 final size:58
Alignment explanation
Indices: 1046849--1047079 Score: 345
Period size: 58 Copynumber: 4.0 Consensus size: 58
1046839 AACAATAGGC
* **
1046849 CCATAAATACATGTGAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
*
1046907 CCATGAATACATCCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
* *
1046965 CCATGAAAACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCATG
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
* * * * ** *
1047023 TCATGAATACATGCAAATTGGGCTTCACTATTTTTGGACATAAGAATTAGGCTCCAA
1 CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAA
1047080 TCTTTATTTT
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 157 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (58 bp):
CCATGAATACATGCAAATTGGGCTCCACTCTTCTTGGACATGTGAATTGGGCTCCAAG
Found at i:1047034 original size:29 final size:31
Alignment explanation
Indices: 1046857--1047051 Score: 117
Period size: 29 Copynumber: 6.7 Consensus size: 31
1046847 GCCCATAAAT
* *
1046857 ACATGTGAATTGGGCTCCACTCTTCTTG--G
1 ACATGTGAATTGGGCTCCACTCGTCATGAAG
* * *
1046886 ACATGTGAATTGGGCTCCA--AGCCATGAAT
1 ACATGTGAATTGGGCTCCACTCGTCATGAAG
*** * *
1046915 ACATCCAAATTGGGCTCCACTCTTCTTG--G
1 ACATGTGAATTGGGCTCCACTCGTCATGAAG
* * *
1046944 ACATGTGAATTGGGCTCCA--AGCCATGAAA
1 ACATGTGAATTGGGCTCCACTCGTCATGAAG
** * *
1046973 ACATGCAAATTGGGCTCCACTCTTCTTG--G
1 ACATGTGAATTGGGCTCCACTCGTCATGAAG
*
1047002 ACATGTGAATTGGGCTCCA-T-GTCATGAAT
1 ACATGTGAATTGGGCTCCACTCGTCATGAAG
** *
1047031 ACATGCAAATTGGGCTTCACT
1 ACATGTGAATTGGGCTCCACT
1047052 ATTTTTGGAC
Statistics
Matches: 119, Mismatches: 36, Indels: 21
0.68 0.20 0.12
Matches are distributed among these distances:
27 10 0.08
28 1 0.01
29 101 0.85
30 1 0.01
31 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (31 bp):
ACATGTGAATTGGGCTCCACTCGTCATGAAG
Found at i:1049939 original size:92 final size:92
Alignment explanation
Indices: 1049774--1050107 Score: 384
Period size: 92 Copynumber: 3.6 Consensus size: 92
1049764 GACAGGGTGT
* * * ** * * *
1049774 AGACCATACATTCCTAATCATATCCCCTTCA-TCCAACCACTAAATAGTATTAATGCATCATAAA
1 AGACCACACATTCCCAATCATAT-CCCTTTATTTTAACCACTAGATGGTATTAATGCATCACAAA
** * * *
1049838 GCCTAATTTCCTTGGGGCAAGGATATCC
65 GGTTGATTTCCTTGGGGCAAAGATATTC
* * *
1049866 AGACCACACATTCCTAATCATATCCCTTTCTTTTAACCACTAGATGGTATTAACGCATCACAAAG
1 AGACCACACATTCCCAATCATATCCCTTTATTTTAACCACTAGATGGTATTAATGCATCACAAAG
*
1049931 GTTGATTTCCTTGGGGTAAAGATATTTC
66 GTTGATTTCCTTGGGGCAAAGATA-TTC
* * * *
1049959 -GACCACTCATTCCCAATCATATCTCTTTATTTTAGCCACTAGATGGTATTGATGCATCACAAAG
1 AGACCACACATTCCCAATCATATCCCTTTATTTTAACCACTAGATGGTATTAATGCATCACAAAG
*
1050023 GTTGATTTCCTTGGGGCAAAGATATTT
66 GTTGATTTCCTTGGGGCAAAGATATTC
* * * * * *
1050050 TGACCACTCATTCCCAATCATATCTCTTTATTTTAGCCACTATATGGTATTGATGCAT
1 AGACCACACATTCCCAATCATATCCCTTTATTTTAACCACTAGATGGTATTAATGCAT
1050108 TACGTGACCA
Statistics
Matches: 214, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
91 7 0.03
92 205 0.96
93 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (92 bp):
AGACCACACATTCCCAATCATATCCCTTTATTTTAACCACTAGATGGTATTAATGCATCACAAAG
GTTGATTTCCTTGGGGCAAAGATATTC
Found at i:1050708 original size:43 final size:42
Alignment explanation
Indices: 1050661--1050811 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 42
1050651 CGGGTAAATC
* * *
1050661 TTTTTATCCTTTGTTGACTTGTTAGTTCAATCTTGGTCAACCT
1 TTTTTATCCTTTGTTTACTTGTCAGTTCAATCTCGGTCAA-CT
* * ** * *
1050704 TTTTTGTCCTTTGTTTATTTGTCAGGTT-GGTCCTCAGTAAATCT
1 TTTTTATCCTTTGTTTACTTGTCA-GTTCAAT-CTCGGTCAA-CT
* * *
1050748 GTTTTATCTTTTGTTAACTTGTCAGTTCAATCTCGGTCAACT
1 TTTTTATCCTTTGTTTACTTGTCAGTTCAATCTCGGTCAACT
* *
1050790 TTCTTATCTTTTGTTTACTTGT
1 TTTTTATCCTTTGTTTACTTGT
1050812 AGGCTTAATC
Statistics
Matches: 83, Mismatches: 22, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
42 21 0.25
43 31 0.37
44 31 0.37
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (42 bp):
TTTTTATCCTTTGTTTACTTGTCAGTTCAATCTCGGTCAACT
Found at i:1050777 original size:87 final size:86
Alignment explanation
Indices: 1050607--1050855 Score: 281
Period size: 86 Copynumber: 2.9 Consensus size: 86
1050597 CTTAGCTATA
* * * *
1050607 CTCGGTCGACC-TTTTTATCCTTTATTTATTTATCAGCTTAGTCCCGGGTAAATCTTTTTATCCT
1 CTCGGTCAACCTTTTTTATCCTTTGTTTATTTGTCAGCTTAGTCCCGAGTAAATCTTTTTATCCT
* *
1050671 TTGTTGACTTGTTAGTTCAAT
66 TTGTTAACTTGTCAGTTCAAT
* * * *
1050692 CTTGGTCAACCTTTTTTGTCCTTTGTTTATTTGTCAGGTTGGTCCTC-AGTAAATCTGTTTTATC
1 CTCGGTCAACCTTTTTTATCCTTTGTTTATTTGTCAGCTTAGTCC-CGAGTAAATCT-TTTTATC
*
1050756 TTTTGTTAACTTGTCAGTTCAAT
64 CTTTGTTAACTTGTCAGTTCAAT
* * * * * * *
1050779 CTCGGTCAA-CTTTCTTATCTTTTGTTTACTTGT-AGGCTTAATCGCGAGTAAGTCCTTTTATCC
1 CTCGGTCAACCTTTTTTATCCTTTGTTTATTTGTCA-GCTTAGTCCCGAGTAAATCTTTTTATCC
1050842 TTTGTTAACTTGTC
65 TTTGTTAACTTGTC
1050856 GACTTAGTCT
Statistics
Matches: 136, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
85 32 0.24
86 68 0.50
87 36 0.26
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (86 bp):
CTCGGTCAACCTTTTTTATCCTTTGTTTATTTGTCAGCTTAGTCCCGAGTAAATCTTTTTATCCT
TTGTTAACTTGTCAGTTCAAT
Found at i:1051123 original size:43 final size:43
Alignment explanation
Indices: 1050984--1052262 Score: 291
Period size: 43 Copynumber: 30.3 Consensus size: 43
1050974 TTAACTAGTC
* * * * *
1050984 TTATCCTTTGTTTGCTTGTCAACTCAGT-CTCAAGTAAATCCCT
1 TTATCCTTTGTTTGCTTGTCAGCTTAATCCTC-GGTAAATCCTT
* * * * *
1051027 TTATCTTTTG-TTGACTTATCAGTTTAAT-CTTGGTCAA-CCTT
1 TTATCCTTTGTTTG-CTTGTCAGCTTAATCCTCGGTAAATCCTT
* * *
1051068 CTTATCCTTTGTTTGCTTATCGGCTTAATCCTCGATAAATCCTT
1 -TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCGGTAAATCCTT
* *
1051112 TTATCCTTTG-TTGACTTGTCAG-TTCAATCC-CCGTCAA-CCTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCTT
* * * * *
1051153 CTTATCCTTTATTTACTTGTTAGCTCAATCCTAGGTAAATCCTT
1 -TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCGGTAAATCCTT
* * * *
1051197 TTATCTTTTG-TTGACTTATCA-ATTCAAT-CTCGGTCAA--CTCT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCT-T
* * * * * * * *
1051238 TTATCCTTTGTTTACCTATCAGCTCAGTCTTTGGTAAATCTTT
1 TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCGGTAAATCCTT
* * *
1051281 TTATCCTTT-ATTGACTTGTCAG-TTCAATCCT-GATTAA--CTGT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCT-T
* * * *
1051322 TTATCCTTTGTTTACCTATCAGCTCAATCCT-GAGTAAATCCTT
1 TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCG-GTAAATCCTT
* * *
1051365 TTATCCTTTG-TTGACTTGTCAG-TTCAATCCT-AGTCAAT-TTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCTT
* * * *
1051406 TTATCCTTTGTTTACCTGTCAGCTCAATCCTTGGTAAATCCTT
1 TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCGGTAAATCCTT
* * * *
1051449 TTATCTTTTG-TTGACTTGTCAG-TTCAAT-CACGAT-CA-CCTAT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCT-T
* * * * * * *
1051490 TTACCCTTTGTTTACCTATCTA-CTCAGTCC-CTAGTAAATCCTT
1 TTATCCTTTGTTTGCTTGTC-AGCTTAATCCTC-GGTAAATCCTT
* * *
1051533 TTATTCTTTG-TTGACTTGTCAG-TTCAAT-CTTGATCAAAT--TT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGT-AAATCCTT
* * * * *
1051574 TTATCCTTT-TATCCTTTGTCAAC-T--T-GTCGGTTCAATCCTCT
1 TTATCCTTTGTTTGC-TTGTCAGCTTAATCCTCGG-TAAATCCT-T
* * * * *
1051615 TTATCCTTTGTTTACCTATCAGCTCAATCC-CTGGTAAATCTTT
1 TTATCCTTTGTTTGCTTGTCAGCTTAATCCTC-GGTAAATCCTT
* ** *
1051658 TTAT-CTTT-TCTTGACTTATCAG-TTCAAT-CTTAGTCAA-CCTTT
1 TTATCCTTTGT-TTG-CTTGTCAGCTT-AATCCTCGGTAAATCC-TT
* * * * * *
1051700 TTATCTTTTGTTTACCTGT-TGATTCAATCCTAGGTAAATCCTT
1 TTATCCTTTGTTTGCTTGTCAGCTT-AATCCTCGGTAAATCCTT
* * * * * *
1051743 TTATCCTTT-ATTGACTTGTTA-ATTCAATCAT-GATCAA-CCTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCTT
* * * **
1051784 TTATCCTTTGTTT-ATCTATC-GGTTCAATCCTAAGTAAATCCTT
1 TTATCCTTTGTTTGCT-TGTCAGCTT-AATCCTCGGTAAATCCTT
* * * *
1051827 TTATCTTTTG-TTGACTTGTCTG-TTCAATCCT-AGTGAA-CCTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCTT
* * * * *
1051868 TTATCCTTTGTTTACCTATCAG-TTCAGTCCTAGGTAAATCCTT
1 TTATCCTTTGTTTGCTTGTCAGCTT-AATCCTCGGTAAATCCTT
* * *
1051911 TTATCCTTTG-TTGACTTGTCGGTTTAATCC-CGGTCAA-CCTTT
1 TTATCCTTTGTTTG-CTTGTCAGCTTAATCCTCGGTAAATCC-TT
* * * * * * *
1051953 TTATCTTTTATTTACCTGTCAGCTTAGTTCTCGGTAAATCTTT
1 TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCGGTAAATCCTT
* *
1051996 TTATCCTTT-ATTGACTTGTCAG-TTCAAT-CTCGGT-CATCCTTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCC-TT
* * * * * * ** *
1052038 TTATCTTTTGTTTACCTATTAGC-TAAGACCAAGGTAATTCCTT
1 TTATCCTTTGTTTGCTTGTCAGCTTAA-TCCTCGGTAAATCCTT
* * *
1052081 TTATCCTTTG-TTGACTTGT-GGATTCAATCC-CGGTTAA-CCTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATCCTT
** * * *
1052122 CTTATCCTTTGTTTAATTGTCAGCTCAGT-CTCGGGTAAATCTTT
1 -TTATCCTTTGTTTGCTTGTCAGCTTAATCCTC-GGTAAATCCTT
** * * *
1052166 TTATCCACTG-TTGACTTGTCAG-TTCAAT-CTTGGTCAA-CTTTT
1 TTATCCTTTGTTTG-CTTGTCAGCTT-AATCCTCGGTAAATC-CTT
* * * *
1052208 TTATCCTTTGTTTATCTT-TCGGCTTACT-CTCAAGTAAATCCTT
1 TTATCCTTTGTTT-GCTTGTCAGCTTAATCCTC-GGTAAATCCTT
1052251 TTATCCTTTGTT
1 TTATCCTTTGTT
1052263 GACTTACCGA
Statistics
Matches: 884, Mismatches: 236, Indels: 232
0.65 0.17 0.17
Matches are distributed among these distances:
38 6 0.01
39 1 0.00
40 9 0.01
41 188 0.21
42 282 0.32
43 357 0.40
44 39 0.04
45 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.46
Consensus pattern (43 bp):
TTATCCTTTGTTTGCTTGTCAGCTTAATCCTCGGTAAATCCTT
Found at i:1051295 original size:84 final size:84
Alignment explanation
Indices: 1051017--1051582 Score: 604
Period size: 84 Copynumber: 6.7 Consensus size: 84
1051007 TCAGTCTCAA
* * * * *
1051017 GTAAATCCCTTTATCTTTTGTTGACTTATCAGTTTAATCTTGGTCAAC-CTTCTTATCCTTTGTT
1 GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTC-T-TTATCCTTTGTT
* * * * *
1051081 TGCTTATCGGCTTAATCCTCG
64 TACCTATCAGCTCAATCCTTG
* * * *
1051102 ATAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCCGTCAAC-CTTCTTATCCTTTATT
1 GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTC-T-TTATCCTTTGTT
* * * *
1051166 TACTTGTTAGCTCAATCCTAG
64 TACCTATCAGCTCAATCCTTG
* * *
1051187 GTAAATCCTTTTATCTTTTGTTGACTTATCAATTCAATCTCGGTCAACTCTTTATCCTTTGTTTA
1 GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTCTTTATCCTTTGTTTA
* *
1051252 CCTATCAGCTCAGTCTTTG
66 CCTATCAGCTCAATCCTTG
* * * * *
1051271 GTAAATCTTTTTATCCTTTATTGACTTGTCAGTTCAATC-CTGATTAACTGTTTATCCTTTGTTT
1 GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTC-GGTCAACTCTTTATCCTTTGTTT
1051335 ACCTATCAGCTCAATCC-TG
65 ACCTATCAGCTCAATCCTTG
* * *
1051354 AGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATC-CTAGTCAATTTTTTATCCTTTGTT
1 -GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTC-GGTCAACTCTTTATCCTTTGTT
*
1051418 TACCTGTCAGCTCAATCCTTG
64 TACCTATCAGCTCAATCCTTG
* * * * * *
1051439 GTAAATCCTTTTATCTTTTGTTGACTTGTCAGTTCAATCACGATCACCTATTTACCCTTTGTTTA
1 GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTCTTTATCCTTTGTTTA
* * *
1051504 CCTATCTA-CTCAGTCCCTA
66 CCTATC-AGCTCAATCCTTG
* * * * *
1051523 GTAAATCCTTTTATTCTTTGTTGACTTGTCAGTTCAATCTTGATCAAATTTTTATCCTTT
1 GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTCTTTATCCTTT
1051583 TATCCTTTGT
Statistics
Matches: 410, Mismatches: 65, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
83 3 0.01
84 289 0.70
85 117 0.29
86 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (84 bp):
GTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGGTCAACTCTTTATCCTTTGTTTA
CCTATCAGCTCAATCCTTG
Found at i:1051477 original size:252 final size:251
Alignment explanation
Indices: 1050984--1051582 Score: 779
Period size: 252 Copynumber: 2.4 Consensus size: 251
1050974 TTAACTAGTC
* * * * * * *
1050984 TTATCCTTTGTTTGCTTGTCAACTCAGTCTCAAGTAAATCCCTTTATCTTTTGTTGACTTATCAG
1 TTATCCTTTGTTTACCTATC-ACTCAGTCTCTAGTAAATCCTTTTATCCTTTGTTGACTTGTCAG
* * * * * *
1051049 TTTAATCTTGGTCAACCTTCTTATCCTTTGTTTGCTTATCGGCTTAATCCTCGATAAATCCTTTT
65 TTCAATCTTGATCAA-CTT-TTATCCTTTGTTTACCTATCAGCTCAATCCTCGATAAATCCTTTT
* * *
1051114 ATCCTTTGTTGACTTGTCAGTTCAATCCCCGTCAACCTTCTTATCCTTTATTTACTTGTTAGCTC
128 ATCCTTTGTTGACTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTATTTACCTGTCAGCTC
* * *
1051179 AATCCTAGGTAAATCCTTTTATCTTTTGTTGACTTATCAATTCAATCTCGGTCAACTCT
193 AATCCTAGGTAAATCCTTTTATCTTTTGTTGACTTATCAATTCAATCACGATCAACTAT
* * * *
1051238 TTATCCTTTGTTTACCTATCAGCTCAGTCTTTGGTAAATCTTTTTATCCTTTATTGACTTGTCAG
1 TTATCCTTTGTTTACCTATCA-CTCAGTCTCTAGTAAATCCTTTTATCCTTTGTTGACTTGTCAG
* *
1051303 TTCAATCCTGATTAACTGTTTATCCTTTGTTTACCTATCAGCTCAATCCT-GAGTAAATCCTTTT
65 TTCAATCTTGATCAACT-TTTATCCTTTGTTTACCTATCAGCTCAATCCTCGA-TAAATCCTTTT
* * * *
1051367 ATCCTTTGTTGACTTGTCAGTTCAATCCTAGTCAA-TTTTTTATCCTTTGTTTACCTGTCAGCTC
128 ATCCTTTGTTGACTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTATTTACCTGTCAGCTC
* * * *
1051431 AATCCTTGGTAAATCCTTTTATCTTTTGTTGACTTGTCAGTTCAATCACGATCACCTAT
193 AATCCTAGGTAAATCCTTTTATCTTTTGTTGACTTATCAATTCAATCACGATCAACTAT
* * *
1051490 TTACCCTTTGTTTACCTATCTACTCAGTCCCTAGTAAATCCTTTTATTCTTTGTTGACTTGTCAG
1 TTATCCTTTGTTTACCTATC-ACTCAGTCTCTAGTAAATCCTTTTATCCTTTGTTGACTTGTCAG
*
1051555 TTCAATCTTGATCAAATTTTTATCCTTT
65 TTCAATCTTGATC-AACTTTTATCCTTT
1051583 TATCCTTTGT
Statistics
Matches: 297, Mismatches: 43, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
252 155 0.52
253 78 0.26
254 64 0.22
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (251 bp):
TTATCCTTTGTTTACCTATCACTCAGTCTCTAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGT
TCAATCTTGATCAACTTTTATCCTTTGTTTACCTATCAGCTCAATCCTCGATAAATCCTTTTATC
CTTTGTTGACTTGTCAGTTCAATCCCAGTCAACCTTCTTATCCTTTATTTACCTGTCAGCTCAAT
CCTAGGTAAATCCTTTTATCTTTTGTTGACTTATCAATTCAATCACGATCAACTAT
Found at i:1051643 original size:209 final size:209
Alignment explanation
Indices: 1051405--1051792 Score: 541
Period size: 210 Copynumber: 1.9 Consensus size: 209
1051395 TAGTCAATTT
* * * *
1051405 TTTATCCTTTGTTTACCTGTCAGCTCAATCCTTGGTAAATCCTTTTATCTTTTGTTGACTTGTCA
1 TTTATCCTTTGTTTACCTATCAGCTCAATCCCTGGTAAATCCTTTTATCTTTTCTTGACTTATCA
*
1051470 GTTCAATC-ACGATC-ACCTATTTACCCTTTGTTTACCTATCT-ACTCAGTCCCTA-GTAAATCC
66 GTTCAATCTA-G-TCAACCTATTTACCCTTTGTTTACCTAT-TGACTCAAT-CCTAGGTAAATCC
* * * * *
1051531 TTTTATTCTTTGTTGACTTGTCAGTTCAATCTTGATCAAATTTTTATCCTTTTATCCTTTGTCAA
127 TTTTATCCTTTATTGACTTGTCAATTCAATCATGATCAAACTTTTATCCTTTTATCCTTTGTCAA
1051596 CTTGTCGGTTCAATCCTC
192 CTTGTCGGTTCAATCCTC
*
1051614 TTTATCCTTTGTTTACCTATCAGCTCAATCCCTGGTAAATCTTTTTATCTTTTCTTGACTTATCA
1 TTTATCCTTTGTTTACCTATCAGCTCAATCCCTGGTAAATCCTTTTATCTTTTCTTGACTTATCA
* * * * *
1051679 GTTCAATCTTAGTCAACCTTTTTATCTTTTGTTTACCTGTTGATTCAATCCTAGGTAAATCCTTT
66 GTTCAATC-TAGTCAACCTATTTACCCTTTGTTTACCTATTGACTCAATCCTAGGTAAATCCTTT
* *
1051744 TATCCTTTATTGACTTGTTAATTCAATCATGATCAACCTTTTATCCTTT
130 TATCCTTTATTGACTTGTCAATTCAATCATGATCAAACTTTTATCCTTT
1051793 GTTTATCTAT
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
209 75 0.48
210 80 0.51
211 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.47
Consensus pattern (209 bp):
TTTATCCTTTGTTTACCTATCAGCTCAATCCCTGGTAAATCCTTTTATCTTTTCTTGACTTATCA
GTTCAATCTAGTCAACCTATTTACCCTTTGTTTACCTATTGACTCAATCCTAGGTAAATCCTTTT
ATCCTTTATTGACTTGTCAATTCAATCATGATCAAACTTTTATCCTTTTATCCTTTGTCAACTTG
TCGGTTCAATCCTC
Found at i:1051872 original size:294 final size:293
Alignment explanation
Indices: 1051321--1051876 Score: 773
Period size: 294 Copynumber: 1.9 Consensus size: 293
1051311 TGATTAACTG
* *
1051321 TTTATCCTTTGTTTACCTATCAGCTCAATCCTGAGTAAATCCTTTTATCCTTTGTTGACTTGTCA
1 TTTATCCTTTGTTTACCTATCAGCTCAATCCTGAGTAAATCCTTTTATCCTTTCTTGACTTATCA
* *
1051386 GTTCAATCCTAGTCAATTTTTTATCCTTTGTTTACCTGTCAGCTCAATCCTTGGTAAATCCTTTT
66 GTTCAATCCTAGTCAACTTTTTATCCTTTGTTTACCTGTCAGCTCAATCCTAGGTAAATCCTTTT
* * * *
1051451 ATCTTTTGTTGACTTGTCAGTTCAATCACGATCACCTATTTACCCTTTGTTTACCTATCTACTCA
131 ATCCTTTATTGACTTGTCAATTCAATCACGATCACCTATTTACCCTTTGTTTACCTATCGACTCA
* * *
1051516 GTCCCTAGTAAATCCTTTTATTCTTTGTTGACTTGTCAGTTCAATCTTGATCAAATTTTTATCCT
196 ATCCCTAGTAAATCCTTTTATTCTTTGTTGACTTGTCAGTTCAATCTAGATCAAACTTTTATCCT
1051581 TTTATCCTTTGTCAACTTGTCGGTTCAATCCTC
261 TTTATCCTTTGTCAACTTGTCGGTTCAATCCTC
* *
1051614 TTTATCCTTTGTTTACCTATCAGCTCAATCCCTG-GTAAATCTTTTTATCTTTTCTTGACTTATC
1 TTTATCCTTTGTTTACCTATCAGCTCAAT-CCTGAGTAAATCCTTTTATCCTTTCTTGACTTATC
* * * *
1051678 AGTTCAATCTTAGTCAACCTTTTTATCTTTTGTTTACCTGT-TGATTCAATCCTAGGTAAATCCT
65 AGTTCAATCCTAGTCAA-CTTTTTATCCTTTGTTTACCTGTCAG-CTCAATCCTAGGTAAATCCT
* * * * *
1051742 TTTATCCTTTATTGACTTGTTAATTCAATCATGATCAACCT-TTTATCCTTTGTTTATCTATCGG
128 TTTATCCTTTATTGACTTGTCAATTCAATCACGATC-ACCTATTTACCCTTTGTTTACCTATCGA
* * * *
1051806 TTCAAT-CCTAAGTAAATCCTTTTA-TCTTTTGTTGACTTGTCTGTTCAATCCTAG-TGAACCTT
192 CTCAATCCCT-AGTAAATCCTTTTATTC-TTTGTTGACTTGTCAGTTCAAT-CTAGATCAAACTT
1051868 TTATCCTTT
254 TTATCCTTT
1051877 GTTTACCTAT
Statistics
Matches: 230, Mismatches: 26, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
293 77 0.33
294 146 0.63
295 7 0.03
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (293 bp):
TTTATCCTTTGTTTACCTATCAGCTCAATCCTGAGTAAATCCTTTTATCCTTTCTTGACTTATCA
GTTCAATCCTAGTCAACTTTTTATCCTTTGTTTACCTGTCAGCTCAATCCTAGGTAAATCCTTTT
ATCCTTTATTGACTTGTCAATTCAATCACGATCACCTATTTACCCTTTGTTTACCTATCGACTCA
ATCCCTAGTAAATCCTTTTATTCTTTGTTGACTTGTCAGTTCAATCTAGATCAAACTTTTATCCT
TTTATCCTTTGTCAACTTGTCGGTTCAATCCTC
Found at i:1052094 original size:170 final size:169
Alignment explanation
Indices: 1051605--1052435 Score: 775
Period size: 170 Copynumber: 4.9 Consensus size: 169
1051595 ACTTGTCGGT
* * * * * * * *
1051605 TCAATCCTCTTTATCCTTTGTTTACCTATCAGCTCAATCCCTGGTAAATCTTTTTATCTTTTCTT
1 TCAA-CCTTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTCGGGTAAATCTTTTTATCCTTTATT
* * * * * *
1051670 GACTTATCAGTTCAATCTTAGTCAACCTTTTTATCTTTTGTTTACCTGTT-GATTCAA-TCCTAG
64 GACTTGTCAGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACCTATTAG-CT-AAGTCCAAG
* ** ** *
1051733 GTAAATCCTTTTATCCTTTATTGACTTGTTAATTCAATCATGA
127 GTAAATCCTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGG
* * * * ** * * *
1051776 TCAACC-TTTTATCCTTTGTTTATCTATCGGTTCAATC-CTAAGTAAATCCTTTTATCTTTTGTT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCGCTT-AGTCTC-GGGTAAATCTTTTTATCCTTTATT
* * * * * * * *
1051839 GACTTGTCTGTTCAATCCTAGTGAACC-TTTTATCCTTTGTTTACCTATCAGTTCAGTCCTAGGT
64 GACTTGTCAGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACCTATTAGCTAAGTCCAAGGT
* *
1051903 AAATCCTTTTATCCTTTGTTGACTTGTCGGTTTAATCCCGG
129 AAATCCTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGG
* *
1051944 TCAACCTTTTTATCTTTTATTTACCTGTCAGCTTAGTTCTC-GGTAAATCTTTTTATCCTTTATT
1 TCAACCTTTTTATCCTTTGTTTACCTGTC-GCTTAG-TCTCGGGTAAATCTTTTTATCCTTTATT
* * * *
1052008 GACTTGTCAGTTCAATCTCGGTCATCCTTTTTATCTTTTGTTTACCTATTAGCTAAGACCAAGGT
64 GACTTGTCAGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACCTATTAGCTAAGTCCAAGGT
* *
1052073 AATTCCTTTTATCCTTTGTTGACTTGTGGATTCAATCCCGG
129 AAATCCTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGG
* * ** * ** *
1052114 TTAACCTTCTTATCCTTTGTTTAATTGTCAGCTCAGTCTCGGGTAAATCTTTTTATCCACTGTTG
1 TCAACCTTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTCGGGTAAATCTTTTTATCCTTTATTG
* * * * *
1052179 ACTTGTCAGTTCAATCTTGGTCAACTTTTTTATCCTTTGTTTATCT-TTCGGCTTACTCTCAA-G
65 ACTTGTCAGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACCTATT-AGCTAAGTC-CAAGG
** *
1052242 TAAATCCTTTTATCCTTTGTTGACTTACCGATTCAATCTCGG
128 TAAATCCTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGG
* * *
1052284 CCAACCTTTTTATCCTTTGTTTACCTGTCGACTTAGTCCCGGGTAAATCATTTTATCCTTTATTG
1 TCAACCTTTTTATCCTTTGTTTACCTGTCG-CTTAGTCTCGGGTAAATCTTTTTATCCTTTATTG
* * * * * * *
1052349 ACTTTTTC-TTTCAATCTTGATCAACCTTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTCAA-G
65 AC-TTGTCAGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACCTATTAGCTAAGTC-CAAGG
* *
1052412 TAACT-CTTTTCATCCTTTATTGAC
128 TAAATCCTTTT-ATCCTTTGTTGAC
1052436 CGGAATCAAT
Statistics
Matches: 548, Mismatches: 96, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
167 1 0.00
168 71 0.13
169 139 0.25
170 324 0.59
171 13 0.02
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.47
Consensus pattern (169 bp):
TCAACCTTTTTATCCTTTGTTTACCTGTCGCTTAGTCTCGGGTAAATCTTTTTATCCTTTATTGA
CTTGTCAGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACCTATTAGCTAAGTCCAAGGTAA
ATCCTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGG
Found at i:1052404 original size:85 final size:85
Alignment explanation
Indices: 1051605--1052435 Score: 699
Period size: 85 Copynumber: 9.8 Consensus size: 85
1051595 ACTTGTCGGT
* * * * * * * *
1051605 TCAATCCTCTTTATCCTTTGTTTACCTATCAGCTCAATCCCTGGTAAATCTTTTTATCTTTTCTT
1 TCAA-CCTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTT
* * *
1051670 GACTTATCAGTTCAATCTTAG
65 GACTTGTCAATTCAATCTTGG
* * * * * *
1051691 TCAACCTTTTTATCTTTTGTTTACCTGT-TGATTCAATCCTAGGTAAATCCTTTTATCCTTTATT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTT-AGTCCCAGGTAAATCCTTTTATCCTTTGTT
* * *
1051755 GACTTGTTAATTCAATCATGA
65 GACTTGTCAATTCAATCTTGG
* * * * * * *
1051776 TCAACC-TTTTATCCTTTGTTTATCTATC-GGTTCAATCCTAAGTAAATCCTTTTATCTTTTGTT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTT-AGTCCCAGGTAAATCCTTTTATCCTTTGTT
** * *
1051839 GACTTGTCTGTTCAATCCTAG
65 GACTTGTCAATTCAATCTTGG
* * *
1051860 TGAACC-TTTTATCCTTTGTTTACCTATCAG-TTCAGTCCTAGGTAAATCCTTTTATCCTTTGTT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTT-AGTCCCAGGTAAATCCTTTTATCCTTTGTT
** * **
1051923 GACTTGTCGGTTTAATCCCGG
65 GACTTGTCAATTCAATCTTGG
* * * * *
1051944 TCAACCTTTTTATCTTTTATTTACCTGTCAGCTTAGTTCTC-GGTAAATCTTTTTATCCTTTATT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTTAG-TCCCAGGTAAATCCTTTTATCCTTTGTT
* *
1052008 GACTTGTCAGTTCAATCTCGG
65 GACTTGTCAATTCAATCTTGG
* * * * * * * *
1052029 TCATCCTTTTTATCTTTTGTTTACCTATTAGCTAAGACCAAGGTAATTCCTTTTATCCTTTGTTG
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTG
** **
1052094 ACTTGTGGATTCAATCCCGG
66 ACTTGTCAATTCAATCTTGG
* * ** * * * * **
1052114 TTAACCTTCTTATCCTTTGTTTAATTGTCAGCTCAGTCTCGGGTAAATCTTTTTATCCACTGTTG
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTG
*
1052179 ACTTGTCAGTTCAATCTTGG
66 ACTTGTCAATTCAATCTTGG
* * * * * * *
1052199 TCAACTTTTTTATCCTTTGTTTATCTTTCGGCTTACTCTCAAGTAAATCCTTTTATCCTTTGTTG
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTG
** * *
1052264 ACTTACCGATTCAATCTCGG
66 ACTTGTCAATTCAATCTTGG
* * * *
1052284 CCAACCTTTTTATCCTTTGTTTACCTGTC-GACTTAGTCCCGGGTAAATCATTTTATCCTTTATT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAG-CTTAGTCCCAGGTAAATCCTTTTATCCTTTGTT
* * *
1052348 GACTTTTTC-TTTCAATCTTGA
65 GAC-TTGTCAATTCAATCTTGG
* * * * *
1052369 TCAACCTTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTCAAGTAACT-CTTTTCATCCTTTATT
1 TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAGGTAAATCCTTTT-ATCCTTTGTT
1052433 GAC
65 GAC
1052436 CGGAATCAAT
Statistics
Matches: 606, Mismatches: 128, Indels: 23
0.80 0.17 0.03
Matches are distributed among these distances:
84 150 0.25
85 444 0.73
86 12 0.02
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.47
Consensus pattern (85 bp):
TCAACCTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTG
ACTTGTCAATTCAATCTTGG
Found at i:1053683 original size:166 final size:163
Alignment explanation
Indices: 1053351--1054018 Score: 581
Period size: 166 Copynumber: 4.1 Consensus size: 163
1053341 TTTTAACTTC
* * * * * ** * *
1053351 AAAATTCTTTAAATATCATTATTTAATTACA-ATTAAATCAGTTTTTCAAAATTC-TTTTTATTT
1 AAAATTCATCAAATATCATCATTTAATT-CATAGTAAATTAGTTTTGAAAAAATCATTTAT-TTT
* * * *
1053414 CATGAGTTTTTCA-TTTTTTCCTTAAAAT-TTTCTGTTTTGAAATACA-GAGTTTTCTACTCCAT
64 CATGAGTTTTTCATTTTTTTCCTTAAAATCCTT-T-ATTTCAAA-AAATGAGTTTTCTACTCCAT
* * * **
1053476 AAATATTTTTG-GGCATTTTTCTAAGTTTATAATTTTT
126 AAATGTTTTCGAGGGATTTTTCTTGGTTTATAATTTTT
* * * * *
1053513 AAAATTCTTCACATATTATCAATTAATTCATAGTAAATTAGTTTTGAAAAAATCATTTATTTTCC
1 AAAATTCATCAAATATCATCATTTAATTCATAGTAAATTAGTTTTGAAAAAATCATTTATTTTCA
1053578 TGAGTTTTTCATTTTTTTCCTTAAAAGTCCTTTATTGTCAAAAAATGGAGTTTTCTACTCCATAA
66 TGAGTTTTTCATTTTTTTCCTTAAAA-TCCTTTATT-TCAAAAAAT-GAGTTTTCTACTCCATAA
1053643 ATGTTTTCGAGGGATTTTTCTTGGTTTGA-AATTTTT
128 ATGTTTTCGAGGGATTTTTCTTGGTTT-ATAATTTTT
* * *
1053679 AAAATTCATCAAATATCATCATTTAATTCACATTAAATTAGTTTT-AAAAAATTTCTTTTA-TTT
1 AAAATTCATCAAATATCATCATTTAATTCATAGTAAATTAGTTTTGAAAAAA--TCATTTATTTT
* * * * * ** * * * * **
1053742 CATGAATTTTTCATTTTTCT-GTTGAAATTCTCCCATTTCCGAAATATGACTTTTCAACTCTTTA
64 CATGAGTTTTTCATTTTTTTCCTTAAAATCCT-TTATTT-CAAAAAATGAGTTTTCTACTCCATA
** *
1053806 AATGTTTTTTAGGGGATTTTTCTTGGTTTATGATTTTT
127 AATGTTTTCGA-GGGATTTTTCTTGGTTTATAATTTTT
* **
1053844 AAAATTCATCAAATATCATCATTTAATTCATAGTAAATCAGTTTTGAAAATTTCATTTATGTTTC
1 AAAATTCATCAAATATCATCATTTAATTCATAGTAAATTAGTTTTGAAAAAATCATTTAT-TTTC
* * * * * *
1053909 AT-AGGTTTTTCA-TTTTTTCTTTAAAATTCTCTTGTTTTAAAAAACCGAGTTTTCTATTCCATA
65 ATGA-GTTTTTCATTTTTTTCCTTAAAATCCT-TTATTTCAAAAAA-TGAGTTTTCTACTCCATA
* *
1053972 AATGTTTTC-AGTGAGATTTTTCTCGATTTA-AATTTTT
127 AATGTTTTCGAG-G-GATTTTTCTTGGTTTATAATTTTT
1054009 AAAATTCATC
1 AAAATTCATC
1054019 TAACATTGTC
Statistics
Matches: 411, Mismatches: 71, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
161 2 0.00
162 56 0.14
163 22 0.05
164 40 0.10
165 140 0.34
166 144 0.35
167 7 0.02
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (163 bp):
AAAATTCATCAAATATCATCATTTAATTCATAGTAAATTAGTTTTGAAAAAATCATTTATTTTCA
TGAGTTTTTCATTTTTTTCCTTAAAATCCTTTATTTCAAAAAATGAGTTTTCTACTCCATAAATG
TTTTCGAGGGATTTTTCTTGGTTTATAATTTTT
Found at i:1053992 original size:331 final size:327
Alignment explanation
Indices: 1053351--1054080 Score: 798
Period size: 331 Copynumber: 2.2 Consensus size: 327
1053341 TTTTAACTTC
* * * **
1053351 AAAATTCTTTAAATATCATTATTTAATTACAATTAAATCAGTTTTTCAAAATTCTTTTTATTTCA
1 AAAATTCATCAAATATCATCATTTAATTACAATTAAATCAGTTTTAAAAAATTCTTTTTATTTCA
* * ** * * *
1053416 TGAGTTTTTCATTTTTTCCTTAAAATTTTCTGTTTTGAAATACAGAGTTTTCTACTCCATAAATA
66 TGAATTTTTCATTTTTTCCTTAAAATTTCCCATTTCGAAATACAGACTTTTCAACTCCATAAATA
* * *
1053481 TTTTTGGGCATTTTTCTAAGTTTATAATTTTTAAAATTCTTCACATATTATCAATTAATTCATAG
131 TTTTTGGGCATTTTTCTAAGTTTATAATTTTTAAAATTCATCAAATATCATCAATTAATTCATAG
* *
1053546 TAAATTAGTTTTGAAAAAATCATTTATTTTCCTGAGTTTTTCATTTTTTTCCTTAAAAGTCCTTT
196 TAAATCAGTTTTGAAAAAATCATTTATTTTCATGAGTTTTTCATTTTTTTCCTTAAAAGTCCTTT
** * *
1053611 ATTGTCAAAAAATGGAGTTTTCTACTCCATAAATGTTTTCGAGGGATTTTTCTTGGTTTGAAATT
261 ATTGTCAAAAAACCGAGTTTTCTACTCCATAAATGTTTTCGAGGGATTTTTCTCGATTT-AAATT
1053676 TTT
325 TTT
*
1053679 AAAATTCATCAAATATCATCATTTAATT-CACATTAAATTAGTTTTAAAAAATT-TCTTTTATTT
1 AAAATTCATCAAATATCATCATTTAATTACA-ATTAAATCAGTTTTAAAAAATTCT-TTTTATTT
* * * **
1053742 CATGAATTTTTCA-TTTTTCTGTTGAAATTCTCCCATTTCCGAAATA-TGACTTTTCAACTCTTT
64 CATGAATTTTTCATTTTTTC-CTTAAAATT-TCCCATTT-CGAAATACAGACTTTTCAACTCCAT
* * ** * *
1053805 AAATGTTTTTTAGGGGATTTTTCTTGGTTTATGATTTTTAAAATTCATCAAATATCATCATTTAA
126 AAAT-ATTTTT-GGGCATTTTTCTAAGTTTATAATTTTTAAAATTCATCAAATATCATCAATTAA
** *
1053870 TTCATAGTAAATCAGTTTTGAAAATTTCATTTATGTTTCAT-AGGTTTTTCA-TTTTTTCTTTAA
189 TTCATAGTAAATCAGTTTTGAAAAAATCATTTAT-TTTCATGA-GTTTTTCATTTTTTTCCTTAA
* *
1053933 AATTCTCTTGT-TT-T-AAAAAACCGAGTTTTCTATTCCATAAATGTTTTC-AGTGAGATTTTTC
252 AAGTC-CTT-TATTGTCAAAAAACCGAGTTTTCTACTCCATAAATGTTTTCGAG-G-GATTTTTC
1053994 TCGATTTAAATTTTT
313 TCGATTTAAATTTTT
* * ** * ** ** **
1054009 AAAATTCATCTAACATTGTCA-TTAGATTCCTTTTAAATCAGTTTTGGAAAATTCAATTTATTTC
1 AAAATTCATCAAATATCATCATTTA-ATTACAATTAAATCAGTTTTAAAAAATTCTTTTTATTTC
*
1054073 TTGAATTT
65 ATGAATTT
1054081 GGAATTTTTT
Statistics
Matches: 336, Mismatches: 50, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
327 9 0.03
328 71 0.21
329 26 0.08
330 104 0.31
331 107 0.32
332 18 0.05
333 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (327 bp):
AAAATTCATCAAATATCATCATTTAATTACAATTAAATCAGTTTTAAAAAATTCTTTTTATTTCA
TGAATTTTTCATTTTTTCCTTAAAATTTCCCATTTCGAAATACAGACTTTTCAACTCCATAAATA
TTTTTGGGCATTTTTCTAAGTTTATAATTTTTAAAATTCATCAAATATCATCAATTAATTCATAG
TAAATCAGTTTTGAAAAAATCATTTATTTTCATGAGTTTTTCATTTTTTTCCTTAAAAGTCCTTT
ATTGTCAAAAAACCGAGTTTTCTACTCCATAAATGTTTTCGAGGGATTTTTCTCGATTTAAATTT
TT
Found at i:1054061 original size:166 final size:165
Alignment explanation
Indices: 1053351--1054069 Score: 612
Period size: 165 Copynumber: 4.4 Consensus size: 165
1053341 TTTTAACTTC
* * * * *
1053351 AAAATTCTTTAAATATCATTATTTAATTACA-ATTAAATCAGTTTTTCAAAATTC-TTTTTATTT
1 AAAATTCATCAAATATCATCATTTAATT-CATATTAAATCAG-TTTTGAAAATTCATTTATATTT
* * *
1053414 CATGAGTTTTTCATTTTTTCCTTAAAATTTTC-TGTTT-TGAAATACAGAGTTTTCTACTCCATA
64 CATGAGTTTTTCATTTTTTCCTTAAAATTCTCTTGTTTCTAAAAAACAGAGTTTTCTACTCCATA
* * * *
1053477 AATATTTT-TGGGCATTTTTC-TAAGTTTATAATTTTT
129 AATGTTTTCAGGGGATTTTTCTTGA-TTTATAATTTTT
* * * * * * *
1053513 AAAATTCTTCACATATTATCAATTAATTCATAGTAAATTAGTTTTGAAAAAATCATTTAT-TTTC
1 AAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTG-AAAATTCATTTATATTTC
* * * **
1053577 CTGAGTTTTTCATTTTTTTCCTTAAAAGTC-CTT-TATTGTCAAAAAATGGAGTTTTCTACTCCA
65 ATGAGTTTTTCA-TTTTTTCCTTAAAATTCTCTTGT-TTCT-AAAAAACAGAGTTTTCTACTCCA
*
1053640 TAAATGTTTTC-GAGGGATTTTTCTTGGTTTGA-AATTTTT
127 TAAATGTTTTCAG-GGGATTTTTCTTGATTT-ATAATTTTT
* * *
1053679 AAAATTCATCAAATATCATCATTTAATTCACATTAAATTAGTTTTAAAAAATTTC-TTT-TATTT
1 AAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTT-GAAAA-TTCATTTATATTT
* * * *** ** * * * * **
1053742 CATGAATTTTTCA-TTTTTCTGTTGAAATTCTCCCATTTCCGAAATA-TGACTTTTCAACTCTTT
64 CATGAGTTTTTCATTTTTTC-CTTAAAATTCTCTTGTTTCTAAAAAACAGAGTTTTCTACTCCAT
* * *
1053805 AAATGTTTTTTAGGGGATTTTTCTTGGTTTATGATTTTT
128 AAATG-TTTTCAGGGGATTTTTCTTGATTTATAATTTTT
* *
1053844 AAAATTCATCAAATATCATCATTTAATTCATAGTAAATCAGTTTTGAAAATTTCATTTATGTTTC
1 AAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTGAAAA-TTCATTTATATTTC
* * *
1053909 AT-AGGTTTTTCATTTTTTCTTTAAAATTCTCTTGTTT-TAAAAAACCGAGTTTTCTATTCCATA
65 ATGA-GTTTTTCATTTTTTCCTTAAAATTCTCTTGTTTCTAAAAAACAGAGTTTTCTACTCCATA
* *
1053972 AATGTTTTCAGTGAGATTTTTCTCGATTTA-AATTTTT
129 AATGTTTTCAG-GGGATTTTTCTTGATTTATAATTTTT
* * ** * *
1054009 AAAATTCATCTAACATTGTCA-TTAGATTCCTTTTAAATCAGTTTTGGAAAATTCAATTTAT
1 AAAATTCATCAAATATCATCATTTA-ATTCATATTAAATCAGTTTT-GAAAATTC-ATTTAT
1054070 TTCTTGAATT
Statistics
Matches: 448, Mismatches: 79, Indels: 56
0.77 0.14 0.10
Matches are distributed among these distances:
161 6 0.01
162 54 0.12
163 22 0.05
164 36 0.08
165 167 0.37
166 152 0.34
167 11 0.02
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (165 bp):
AAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTGAAAATTCATTTATATTTCA
TGAGTTTTTCATTTTTTCCTTAAAATTCTCTTGTTTCTAAAAAACAGAGTTTTCTACTCCATAAA
TGTTTTCAGGGGATTTTTCTTGATTTATAATTTTT
Found at i:1054603 original size:14 final size:14
Alignment explanation
Indices: 1054579--1054620 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1054569 TGGAGAGAAA
1054579 AAAACAGAAAAAAAC
1 AAAA-AGAAAAAAAC
*
1054594 AAAAAGAAAAAATAG
1 AAAAAGAAAAAA-AC
1054609 AAAAA-AAAAAAA
1 AAAAAGAAAAAAA
1054621 AGCTAAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 14 0.56
15 10 0.40
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAAAC
Found at i:1054610 original size:23 final size:23
Alignment explanation
Indices: 1054577--1054622 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1054567 AGTGGAGAGA
*
1054577 AAAAAACAGAAAAAAACAAAAAG
1 AAAAAACAGAAAAAAAAAAAAAG
*
1054600 AAAAAATAGAAAAAAAAAAAAAG
1 AAAAAACAGAAAAAAAAAAAAAG
1054623 CTAAACTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.85, C:0.04, G:0.09, T:0.02
Consensus pattern (23 bp):
AAAAAACAGAAAAAAAAAAAAAG
Found at i:1055785 original size:141 final size:136
Alignment explanation
Indices: 1055519--1055794 Score: 349
Period size: 141 Copynumber: 2.0 Consensus size: 136
1055509 TGAATAGAGG
* *
1055519 TTATTATCATAATTTTTCAAGATTTTTACTATTCCTATGATTTTCGTAGGGGCATGAAAATATTC
1 TTATTATCATAATTTTTCAAGATTTCTAATATTCCTATGATTTTCGTAGGGG-ATGAAAATATTC
*
1055584 AAAATTTTCGTATCTTTTCGGTTCTCCATTAAGGTACAAAATGAATTTTTTGAAAATTAAAAATT
65 AAAATTTTCGTATCTTTTCGGTTCTCCATTAAGGTACAAAATGAA--TTTTCAAAATTAAAAATT
1055649 AAATAAAAA
128 AAATAAAAA
** * * * *
1055658 TTATTATTTTAATTTTTCAAGATTTCTAATATTCTTATGGTTTTTCGTTGGGG-TGTAGAAATCT
1 TTATTATCATAATTTTTCAAGATTTCTAATATTCCTAT-GATTTTCGTAGGGGATG-A-AAATAT
* *
1055722 TTAAAACTTTTCGTATCTTTTTGGTTCTCCATTAAGGTACAAAATGTGAA-TTTCAAAAGTTAAA
63 TCAAAA-TTTTCGTATCTTTTCGGTTCTCCATTAAGGTACAAAA--TGAATTTTCAAAA-TTAAA
1055786 AATTAAATA
124 AATTAAATA
1055795 TTATATTATT
Statistics
Matches: 119, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
138 2 0.02
139 34 0.29
140 29 0.24
141 50 0.42
143 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (136 bp):
TTATTATCATAATTTTTCAAGATTTCTAATATTCCTATGATTTTCGTAGGGGATGAAAATATTCA
AAATTTTCGTATCTTTTCGGTTCTCCATTAAGGTACAAAATGAATTTTCAAAATTAAAAATTAAA
TAAAAA
Found at i:1061893 original size:20 final size:21
Alignment explanation
Indices: 1061861--1061909 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
1061851 TTTGGCTTAG
1061861 TTTT-TTTCTTTTTTC-TCTCT
1 TTTTCTTTCTTTTTTCTTCT-T
1061881 TTTTCTTTC-TTTTTCTTCTT
1 TTTTCTTTCTTTTTTCTTCTT
1061901 TTTTCTTTC
1 TTTTCTTTC
1061910 ACTTGCTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTCTTCTT
Found at i:1061903 original size:9 final size:9
Alignment explanation
Indices: 1061861--1061903 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
1061851 TTTGGCTTAG
1061861 TTTTT-TTC
1 TTTTTCTTC
1061869 TTTTTTCTCTC
1 -TTTTTCT-TC
1061880 TTTTTCTTTC
1 TTTTTC-TTC
1061890 TTTTTCTTC
1 TTTTTCTTC
1061899 TTTTT
1 TTTTT
1061904 TCTTTCACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 13 0.42
10 15 0.48
11 3 0.10
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:1062235 original size:16 final size:17
Alignment explanation
Indices: 1062208--1062240 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1062198 CAACTAGTTA
1062208 AAAACATAAATAAAATT
1 AAAACATAAATAAAATT
1062225 AAAAC-TAAATAAAATT
1 AAAACATAAATAAAATT
1062241 TTCAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAACATAAATAAAATT
Found at i:1065378 original size:36 final size:35
Alignment explanation
Indices: 1065292--1065383 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 35
1065282 GTTAAACGGT
*
1065292 AATGAAAAGAA-TTTGACCAGGTACAGTCAAACAGG
1 AATGAAAA-AAGTTTGACTAGGTACAGTCAAACAGG
* * *
1065327 AATGAAAAAAGTTTGACTAGGTATAGTTAAATAGG
1 AATGAAAAAAGTTTGACTAGGTACAGTCAAACAGG
1065362 AATGAAAAAATGTTTGACTAGG
1 AATGAAAAAA-GTTTGACTAGG
1065384 GCAAGAACCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 2 0.04
35 38 0.75
36 11 0.22
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.24
Consensus pattern (35 bp):
AATGAAAAAAGTTTGACTAGGTACAGTCAAACAGG
Found at i:1065414 original size:116 final size:115
Alignment explanation
Indices: 1065211--1065461 Score: 274
Period size: 116 Copynumber: 2.2 Consensus size: 115
1065201 ATCAAATGGT
* * * * * *
1065211 AATGACAAAAGTTTGATTAGCTATAGTTAAACGAGAATGAACAGATGTTTGACCAAGGCAATAAC
1 AATGAAAAAAGTTTGACTAGCTATAGTTAAAAGAGAATGAAAAAATGTTTGACCAAGGCAAGAAC
* * *
1065276 CATCACGTTAAACGGTAATGAAAAGAATTTGACCAGGTACAGTCAAACAG-G
66 CATCACATCAAAAGGTAATGAAAAGAATTTGACCAGGT-CAGTCAAAC-GTG
* * *
1065327 AATGAAAAAAGTTTGACTAGGTATAGTTAAATAG-GAATGAAAAAATGTTTGACTAGGGCAAGAA
1 AATGAAAAAAGTTTGACTAGCTATAGTTAAA-AGAGAATGAAAAAATGTTTGACCAAGGCAAGAA
* * ** *
1065391 CCATCACATCAAATAGG-ACTGAAAAGAGTTTGACTTGGTCAGTCAATCGTG
65 CCATCACATCAAA-AGGTAATGAAAAGAATTTGACCAGGTCAGTCAAACGTG
*
1065442 AATGAAAAGATGTTTGACTA
1 AATGAAAA-AAGTTTGACTA
1065462 AGGTGAAAAC
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
114 1 0.01
115 17 0.15
116 92 0.81
117 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (115 bp):
AATGAAAAAAGTTTGACTAGCTATAGTTAAAAGAGAATGAAAAAATGTTTGACCAAGGCAAGAAC
CATCACATCAAAAGGTAATGAAAAGAATTTGACCAGGTCAGTCAAACGTG
Found at i:1065461 original size:80 final size:80
Alignment explanation
Indices: 1065327--1065644 Score: 315
Period size: 80 Copynumber: 4.0 Consensus size: 80
1065317 GTCAAACAGG
* * *
1065327 AATGAAAAAAGTTTGACTAGGTATAGTTAAATAGGAATGAAAAAATGTTTGACTAGGGCAAGAAC
1 AATGAAAAGAGTTTGACTAGGTATAG-TCAATCGGAATGAAAAAATGTTTGACTAGGGCAAGAAC
*
1065392 CATCACATCAAATAGG-
65 CATCACGTCAAAT-GGT
* * * *
1065408 ACTGAAAAGAGTTTGACTTGGT-CAGTCAATCGTGAATGAAAAGATGTTTGACTAAGGTG-AA-A
1 AATGAAAAGAGTTTGACTAGGTATAGTCAATCG-GAATGAAAAAATGTTTGACT-AGG-GCAAGA
* * *
1065470 ACTATCCCGTCAAACGGT
63 ACCATCACGTCAAATGGT
* * ** * * **
1065488 AATG-AAAGAGTTTGA-TCAAGTATAGTCAAACGAGAATGAAAAGTTATTTGACCAGAACAAGAA
1 AATGAAAAGAGTTTGACT-AGGTATAGTCAATCG-GAATGAAAAAATGTTTGACTAGGGCAAGAA
*
1065551 CCATCACGCCAAATGGT
64 CCATCACGTCAAATGGT
* *
1065568 AATGAAAAGAGTTTGACTAGGTATAGTTAAATAGGAATGAAAAAATGTTTGACTAGGGCAAGAAC
1 AATGAAAAGAGTTTGACTAGGTATAG-TCAATCGGAATGAAAAAATGTTTGACTAGGGCAAGAAC
*
1065633 CATAACGTCAAA
65 CATCACGTCAAA
1065645 CAAGAATGAA
Statistics
Matches: 188, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
78 1 0.01
79 24 0.13
80 80 0.43
81 77 0.41
82 6 0.03
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGAAAAGAGTTTGACTAGGTATAGTCAATCGGAATGAAAAAATGTTTGACTAGGGCAAGAACC
ATCACGTCAAATGGT
Found at i:1065653 original size:81 final size:82
Alignment explanation
Indices: 1065317--1065656 Score: 333
Period size: 81 Copynumber: 4.2 Consensus size: 82
1065307 ACCAGGTACA
*
1065317 GTCAAACAGGAATGAAAAAAGTTTGACTAGGTATAGTTAAATAG-GAATGAAAAAATGTTTGACT
1 GTCAAACAGGAATGAAAAGAGTTTGACTAGGTATAGTTAAATAGAGAATGAAAAAATGTTTGACT
1065381 AGGGCAAGAACCATCAC
66 AGGGCAAGAACCATCAC
* * * * * * * * *
1065398 ATCAAATAGGACTGAAAAGAGTTTGACTTGGT-CAG-TCAATCGTGAATGAAAAGATGTTTGACT
1 GTCAAACAGGAATGAAAAGAGTTTGACTAGGTATAGTTAAATAGAGAATGAAAAAATGTTTGACT
* *
1065461 AAGGTG-AA-AACTATCCC
66 -AGG-GCAAGAACCATCAC
* * * ** *
1065478 GTCAAAC-GGTAATG-AAAGAGTTTGA-TCAAGTATAGTCAAA-CGAGAATGAAAAGTTATTTGA
1 GTCAAACAGG-AATGAAAAGAGTTTGACT-AGGTATAGTTAAATAGAGAATGAAAAAATGTTTGA
* **
1065539 CCAGAACAAGAACCATCAC
64 CTAGGGCAAGAACCATCAC
* *
1065558 GCCAAA-TGGTAATGAAAAGAGTTTGACTAGGTATAGTTAAATAG-GAATGAAAAAATGTTTGAC
1 GTCAAACAGG-AATGAAAAGAGTTTGACTAGGTATAGTTAAATAGAGAATGAAAAAATGTTTGAC
*
1065621 TAGGGCAAGAACCATAAC
65 TAGGGCAAGAACCATCAC
*
1065639 GTCAAACAAGAATGAAAA
1 GTCAAACAGGAATGAAAA
1065657 AAATGTTTGA
Statistics
Matches: 204, Mismatches: 41, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
78 1 0.00
79 24 0.12
80 76 0.37
81 99 0.49
82 4 0.02
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (82 bp):
GTCAAACAGGAATGAAAAGAGTTTGACTAGGTATAGTTAAATAGAGAATGAAAAAATGTTTGACT
AGGGCAAGAACCATCAC
Found at i:1065675 original size:47 final size:47
Alignment explanation
Indices: 1065602--1065704 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 47
1065592 AGTTAAATAG
* *
1065602 GAATG-AAAAAATGTTTGACTAGGGCAAGAACCATAACGTCAAACAA
1 GAATGAAAAAAATGTTTGAATAAGGCAAGAACCATAACGTCAAACAA
* *
1065648 GAATGAAAAAAATGTTTGAATAAGGCAAGAACCATCACGTCAAACGA
1 GAATGAAAAAAATGTTTGAATAAGGCAAGAACCATAACGTCAAACAA
*
1065695 TAATGAAAAA
1 GAATGAAAAA
1065705 GGTTTGACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 5 0.10
47 46 0.90
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.17
Consensus pattern (47 bp):
GAATGAAAAAAATGTTTGAATAAGGCAAGAACCATAACGTCAAACAA
Found at i:1066275 original size:92 final size:92
Alignment explanation
Indices: 1066117--1066353 Score: 377
Period size: 92 Copynumber: 2.6 Consensus size: 92
1066107 TTTATGGTCA
* * *
1066117 TGTGATACATCAATACCATCTAGTGGCTAAAAGAAAGGGATATGATTGGGAATAAGTGGTCGGGA
1 TGTGATGCATCAATACCATCTAGTGGCTAAAAGAAAGGGATATGATTAGGAATAAGTGGTCAGGA
*
1066182 TATCCTTGCCCAAAGGAAATTAGGCTT
66 TATCCTTGCCCAAAGGAAATCAGGCTT
* *
1066209 TGTGATGCATCAATACCATCTAGTGGCCAAAAGAAAGGGATATGATTAGGAATGAGTGGTCAGGA
1 TGTGATGCATCAATACCATCTAGTGGCTAAAAGAAAGGGATATGATTAGGAATAAGTGGTCAGGA
*
1066274 TATCCTTGCCCTAAGGAAATCAGGCTT
66 TATCCTTGCCCAAAGGAAATCAGGCTT
* * *
1066301 TATGATGCATCAATACCATGTAATGGCTAAAAGAAAGGGATAT-ATTAGGAATA
1 TGTGATGCATCAATACCATCTAGTGGCTAAAAGAAAGGGATATGATTAGGAATA
1066354 TATGGGTGGT
Statistics
Matches: 133, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 9 0.07
92 124 0.93
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (92 bp):
TGTGATGCATCAATACCATCTAGTGGCTAAAAGAAAGGGATATGATTAGGAATAAGTGGTCAGGA
TATCCTTGCCCAAAGGAAATCAGGCTT
Found at i:1068282 original size:3 final size:3
Alignment explanation
Indices: 1068276--1068300 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1068266 AGAGGTAATA
1068276 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
1068301 GCAAGAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:1068806 original size:20 final size:21
Alignment explanation
Indices: 1068769--1068823 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
1068759 AATCTTCTTA
1068769 AAAAGAAAATAAATGAATTAG-
1 AAAAGAAAATAAATGAATT-GC
*
1068790 AAAAGAAAAT-TATGAATTGCC
1 AAAAGAAAATAAATGAATTG-C
1068811 AAAAGAAAATAAA
1 AAAAGAAAATAAA
1068824 GAAGTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 7 0.24
21 20 0.69
22 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.18
Consensus pattern (21 bp):
AAAAGAAAATAAATGAATTGC
Found at i:1087017 original size:12 final size:11
Alignment explanation
Indices: 1086987--1087066 Score: 51
Period size: 12 Copynumber: 7.3 Consensus size: 11
1086977 AAGAGAAAGA
*
1086987 AGAGATAAGAG
1 AGAGATAGGAG
*
1086998 GGATGATAGGATG
1 AGA-GATAGGA-G
1087011 AGAGATA-G-G
1 AGAGATAGGAG
*
1087020 AGAGATA-G-T
1 AGAGATAGGAG
1087029 AGAGATAGGAG
1 AGAGATAGGAG
*
1087040 GGATGATAGGAGG
1 AGA-GATAGGA-G
*
1087053 AGAGATATGAG
1 AGAGATAGGAG
1087064 AGA
1 AGA
1087067 TAATGAGAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 16 0.29
10 1 0.02
11 9 0.16
12 23 0.42
13 6 0.11
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (11 bp):
AGAGATAGGAG
Found at i:1087033 original size:11 final size:9
Alignment explanation
Indices: 1087010--1087068 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
1087000 ATGATAGGAT
1087010 GAGAGATAG
1 GAGAGATAG
1087019 GAGAGATAG
1 GAGAGATAG
*
1087028 TAGAGATAG
1 GAGAGATAG
*
1087037 GAGGGAT--
1 GAGAGATAG
* *
1087044 GATAG-GAG
1 GAGAGATAG
*
1087052 GAGAGATAT
1 GAGAGATAG
1087061 GAGAGATA
1 GAGAGATA
1087069 ATGAGAGAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
9 31 0.82
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (9 bp):
GAGAGATAG
Found at i:1087033 original size:42 final size:42
Alignment explanation
Indices: 1086978--1087095 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
1086968 TAGCCCTCAA
* * *
1086978 AGAGAAAGAAGAGATAAGAGGGATGATAGGATGAGAGATAGG
1 AGAGATAGTAGAGATAAGAGGGATGATAGGAGGAGAGATAGG
* *
1087020 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATATG
1 AGAGATAGTAGAGATAAGAGGGATGATAGGAGGAGAGATAGG
* *
1087062 AGAGATAAT-GAGA-GAGAAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGATAAG-AGGGATGATAGGAGGAG
1087096 GAAAGAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 21 0.31
42 45 0.67
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (42 bp):
AGAGATAGTAGAGATAAGAGGGATGATAGGAGGAGAGATAGG
Found at i:1093900 original size:2 final size:2
Alignment explanation
Indices: 1093893--1093922 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1093883 TGGTCGGCAC
*
1093893 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1093923 TGTCTTGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.