Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 89 of 332
Found at i:28411235 original size:27 final size:27
Alignment explanation
Indices: 28411205--28411398 Score: 217
Period size: 27 Copynumber: 7.2 Consensus size: 27
28411195 GGGGCAAAAT
* * *
28411205 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
28411232 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
28411259 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
28411286 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
28411313 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
28411340 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
28411367 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
28411394 AGTAA
1 GGTAA
28411399 CTTCACAATC
Statistics
Matches: 142, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:28411349 original size:81 final size:82
Alignment explanation
Indices: 28411207--28411398 Score: 262
Period size: 81 Copynumber: 2.4 Consensus size: 82
28411197 GGCAAAATGG
* * * * * * *
28411207 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
28411272 TACAAGGGTATTTCA-A
66 TACAAGGGTATTTCAGA
* *
28411288 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
* *
28411353 TATAGGGGTATTTCAGA
66 TACAAGGGTATTTCAGA
*
28411370 -AATTCTACCCTACAGGGGTATTTCAGTAA
1 TAATTCTACCCTACAGGGGTATTTCGGTAA
28411399 CTTCACAATC
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 96 0.99
82 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCAGA
Found at i:28411441 original size:27 final size:27
Alignment explanation
Indices: 28411405--28412223 Score: 905
Period size: 27 Copynumber: 30.3 Consensus size: 27
28411395 GTAACTTCAC
* *
28411405 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28411432 AATTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28411459 AA-CTGAGGGTAAACCAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
28411486 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
28411513 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28411540 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
28411567 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
28411594 AATTGATGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
28411621 AA-CTGAGGGTAAAACGATAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
28411648 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28411675 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28411702 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
28411729 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28411756 AATTGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28411783 AATTGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28411810 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
28411837 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
28411864 AA-CTTAGGGTAAAACAATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
28411891 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28411918 AA-CTAAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
28411945 AATCGAGGGTAAAATGGTCATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
28411972 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28411999 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28412026 AA-CTGAGGGTAAAACGGTAGTTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
28412053 AATCAAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28412080 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28412107 AATCGAAGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28412134 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
28412161 AATCGAGGGTAAAAAGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28412188 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
28412215 AATCGAGGG
1 AATCGAGGG
28412224 GTACTTTGGT
Statistics
Matches: 673, Mismatches: 105, Indels: 28
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.01
27 662 0.98
28 6 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:28414245 original size:6 final size:6
Alignment explanation
Indices: 28414234--28414391 Score: 161
Period size: 6 Copynumber: 26.8 Consensus size: 6
28414224 AACCAAAATG
28414234 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC --AAT-
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
28414279 AGTAA-C AGAATC AGAATC AGAATC AGAATT AGTGA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * *
28414327 AGAATT AGTAA-C AGAATT AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
28414375 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
28414392 GTGAATGCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
4 3 0.02
5 9 0.07
6 109 0.86
7 6 0.05
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:28414546 original size:27 final size:26
Alignment explanation
Indices: 28414509--28414574 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
28414499 AGCATGGCTG
*
28414509 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
28414535 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
28414562 CCAGAATCAGATA
1 CCAGAA-CAGATA
28414575 GTGTGGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:28414589 original size:27 final size:27
Alignment explanation
Indices: 28414533--28414590 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
28414523 GTGACAGAGT
* * *
28414533 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAGTGTGGCAAACC
*
28414560 CACCAGA-ATCAGATAGTGTGGTAAACC
1 CACCAGATA-CAGATAGTGTGGCAAACC
28414587 CACC
1 CACC
28414591 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAGTGTGGCAAACC
Found at i:28414943 original size:27 final size:26
Alignment explanation
Indices: 28414893--28414976 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
28414883 TCGATCGGTC
**
28414893 AACAGATATTGTGATAGAGT-CACCAA
1 AACAGATATTGTGGCAGA-TCCACCAA
*
28414919 ATACAGATATTGTGGCAGATCCACCAG
1 A-ACAGATATTGTGGCAGATCCACCAA
* * *
28414946 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGATCCACCAA
28414973 AACA
1 AACA
28414977 CTTCCTCCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGATCCACCAA
Found at i:28415204 original size:27 final size:27
Alignment explanation
Indices: 28415174--28415370 Score: 135
Period size: 27 Copynumber: 7.3 Consensus size: 27
28415164 GAGGCAAAAT
*
28415174 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * *
28415201 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
*
28415228 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATCTC
** * * * * *
28415255 AATAATTCTATCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
28415282 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
** * * * *
28415309 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
28415336 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
*
28415363 AGTAATTT
1 GGTAATTT
28415371 CACAATCAAG
Statistics
Matches: 142, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.02
27 136 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATCTC
Found at i:28415240 original size:54 final size:54
Alignment explanation
Indices: 28415174--28415369 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
28415164 GAGGCAAAAT
* * * **
28415174 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
28415228 GGTATTTCTACCCTACAAGGGTATTTCAATAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
28415282 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
28415336 GATAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATT
28415370 TCACAATCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
Found at i:28415318 original size:81 final size:81
Alignment explanation
Indices: 28415176--28415369 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
28415166 GGCAAAATGG
* * * * * ** *
28415176 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCC
28415241 TACAAGGGTATTTCAA
66 TACAAGGGTATTTCAA
* * * *
28415257 TAATTCTATCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCC
* * *
28415322 TATAGGGGTATTTCGA
66 TACAAGGGTATTTCAA
*
28415338 TAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
28415370 TCACAATCAA
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCC
TACAAGGGTATTTCAA
Found at i:28415429 original size:27 final size:27
Alignment explanation
Indices: 28415374--28416111 Score: 808
Period size: 27 Copynumber: 27.3 Consensus size: 27
28415364 GTAATTTCAC
* * *
28415374 AATCAAGGGTAAAACGGTACTTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28415401 AATTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
28415428 AA-CTGAGGGTAAACCAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
28415455 AATCAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28415482 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
28415509 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28415536 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
28415563 AATCTATGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
28415590 AA-CTGAGGGTAAAATGGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
28415617 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28415644 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28415671 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
28415698 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28415725 AA-CTGAGGGTAAAACTGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
28415752 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28415779 AA-CTGGGGGTGAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
28415806 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28415833 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28415860 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28415887 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
28415914 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28415941 AA-CTGAAGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
28415968 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
28415995 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
28416022 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
28416049 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
28416076 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
28416103 AATCGAGGG
1 AATCGAGGG
28416112 GTACTTTGGT
Statistics
Matches: 610, Mismatches: 85, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.01
27 595 0.98
28 8 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:28424112 original size:50 final size:49
Alignment explanation
Indices: 28424037--28424326 Score: 241
Period size: 50 Copynumber: 6.0 Consensus size: 49
28424027 TGATGCTAGG
* * * * *
28424037 GAGATATTAAAGCTAGTGTAAGACCATGCCTAGGACATGGCATTGGCCT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * *
28424086 CGAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGTCATTGG-CT
1 -GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * *
28424135 -TGATATGTG-TC-AGTGTAAGACCATGTTTGGGACATGGCATCGGCACT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CT
* * * *
28424182 GATAGATGAGAGCTAGCGTAAGACCATGTCTGGGACATGGCATCAGCCT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * *
28424231 CGATATACGAAAG-TCAATGTAAGACCATGTCTGGGACATGGCATC-GACT
1 -GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
** * * * ** *
28424280 TTGATGTGTGAGCCAGTGTAAGACCATGTCCAGGACATGGCGTCGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
28424327 ACCTTACCCT
Statistics
Matches: 191, Mismatches: 40, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
45 28 0.15
46 1 0.01
47 9 0.05
48 36 0.19
49 10 0.05
50 107 0.56
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
Found at i:28424214 original size:95 final size:98
Alignment explanation
Indices: 28424051--28424276 Score: 271
Period size: 95 Copynumber: 2.3 Consensus size: 98
28424041 TATTAAAGCT
* * * * *
28424051 AGTGTAAGACCATGCCTAGGACATGGCATTGGCCTCGAGATATGAGAGCTAGTGTAAGACCATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGATGAGAGCTAGCGTAAGACCATCT
* * * * *
28424116 CTGGGACATGTCAT-TGGCTTGATAT-G-TGTC
66 CTGGGACATGGCATCAGCCTCGATATAGAAGTC
* * *
28424146 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACT-GATAGATGAGAGCTAGCGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGAGATGAGAGCTAGCGTAAGACCATC
28424210 TCTGGGACATGGCATCAGCCTCGATATACGAAAGTC
65 TCTGGGACATGGCATCAGCCTCGATATA-G-AAGTC
*
28424246 AATGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
28424277 ACTTTGATGT
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
95 67 0.61
96 10 0.09
98 1 0.01
100 32 0.29
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (98 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGATGAGAGCTAGCGTAAGACCATCT
CTGGGACATGGCATCAGCCTCGATATAGAAGTC
Found at i:28434102 original size:28 final size:28
Alignment explanation
Indices: 28434061--28434220 Score: 146
Period size: 28 Copynumber: 5.7 Consensus size: 28
28434051 TCTCAAAGTT
* * *
28434061 TCGCACACTCAGTGCCTTCAC-GGATGTA
1 TCGCACACTAAGTGCCATC-CTGGATGTC
28434089 TCGCACACTAAGTGCCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCCTGGATGTC
*
28434117 TCGCACACTAAGTACCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCCTGGATGTC
* * ** *
28434145 TTGCACACTAAGTGCCATCTTCAATAAT-
1 TCGCACACTAAGTGCCATCCTGGAT-GTC
* * * * *
28434173 TTGCACACTAAGT-CTATTTCTGGATATT
1 TCGCACACTAAGTGCCA-TCCTGGATGTC
28434201 TCGCACACTAAGTGCCATCC
1 TCGCACACTAAGTGCCATCC
28434221 CCAATAATTC
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
27 5 0.05
28 101 0.93
29 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTGGATGTC
Found at i:28434179 original size:56 final size:56
Alignment explanation
Indices: 28434089--28434241 Score: 168
Period size: 56 Copynumber: 2.7 Consensus size: 56
28434079 CACGGATGTA
*** * *
28434089 TCGCACACTAAGTGCCATCCTGGAT-GTCTCGCACACTAAGTACCA-TCCTGGATGTCT
1 TCGCACACTAAGTGCCATCCCCAATAAT-TCGCACACTAAGT-CCATTCCTGGATAT-T
** * * *
28434146 T-GCACACTAAGTGCCATCTTCAATAATTTGCACACTAAGTCTATTTCTGGATATT
1 TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGTCCATTCCTGGATATT
28434201 TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGT
1 TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGT
28434242 GCCTTTTTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
55 4 0.05
56 76 0.93
57 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATCCCCAATAATTCGCACACTAAGTCCATTCCTGGATATT
Found at i:28434231 original size:28 final size:28
Alignment explanation
Indices: 28434089--28434244 Score: 120
Period size: 28 Copynumber: 5.6 Consensus size: 28
28434079 CACGGATGTA
** *
28434089 TCGCACACTAAGTGCCATCCTGGAT-GT
1 TCGCACACTAAGTGCCATCCTCAATAAT
* ** *
28434116 CTCGCACACTAAGTACCATCCTGGAT-GT
1 -TCGCACACTAAGTGCCATCCTCAATAAT
* *
28434144 CTTGCACACTAAGTGCCATCTTCAATAAT
1 -TCGCACACTAAGTGCCATCCTCAATAAT
* * * ** *
28434173 TTGCACACTAAGT-CTATTTCTGGATATT
1 TCGCACACTAAGTGCCA-TCCTCAATAAT
*
28434201 TCGCACACTAAGTGCCATCCCCAATAAT
1 TCGCACACTAAGTGCCATCCTCAATAAT
28434229 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
28434245 TTTTTCACAA
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 2 0.02
28 100 0.95
29 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTCAATAAT
Found at i:28443913 original size:39 final size:39
Alignment explanation
Indices: 28443760--28443936 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 39
28443750 AAGCCAAGTA
* * *
28443760 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCAC-AATG
*
28443799 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* * *
28443839 CCTTCGGGAATTAGCCCGGGTATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA-TG
* *
28443879 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC-AATG
28443918 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
28443937 TTATCATCCG
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 43 0.36
40 75 0.63
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
Found at i:28451886 original size:40 final size:40
Alignment explanation
Indices: 28451824--28452040 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
28451814 AAGCCAAGTA
* * *
28451824 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* *
28451863 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
28451903 CCTTCGGGACTTAGCCCGGACATAATAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
28451943 CCTTCGGGAATTAGCCCGGGTATAATAACTCGCAC-AATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAA-TG
* * *
28451983 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
28452022 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
28452041 TTATCATCCG
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 43 0.28
40 111 0.72
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:28462396 original size:12 final size:12
Alignment explanation
Indices: 28462378--28462443 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
28462368 AAGAAATATT
28462378 ATCAGAACTAGA
1 ATCAGAACTAGA
* *
28462390 ATTAGAATTAGA
1 ATCAGAACTAGA
*
28462402 ATCAGAACTAGT
1 ATCAGAACTAGA
28462414 ATCAGGTAAC-AGA
1 ATCA-G-AACTAGA
* *
28462427 ATCAAAACCAGA
1 ATCAGAACTAGA
28462439 ATCAG
1 ATCAG
28462444 TATCAGGTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 3 0.07
12 30 0.70
13 7 0.16
14 3 0.07
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (12 bp):
ATCAGAACTAGA
Found at i:28462396 original size:24 final size:24
Alignment explanation
Indices: 28462362--28462412 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
28462352 TAACCCATTA
**
28462362 TAGAATAAGAAATATTATCAGAAC
1 TAGAATAAGAAATAGAATCAGAAC
* *
28462386 TAGAATTAGAATTAGAATCAGAAC
1 TAGAATAAGAAATAGAATCAGAAC
28462410 TAG
1 TAG
28462413 TATCAGGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (24 bp):
TAGAATAAGAAATAGAATCAGAAC
Found at i:28462645 original size:27 final size:26
Alignment explanation
Indices: 28462603--28462704 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
28462593 GCTCAGTTAT
* *
28462603 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
28462630 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
28462656 CAGATATTTGTTGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
28462684 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
28462705 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:28463119 original size:27 final size:27
Alignment explanation
Indices: 28463089--28463207 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
28463079 GGTACTTTGG
28463089 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
28463116 TAATTTTATAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * ***
28463143 TAATTTCACAAATC-AGGGATATTTTGG
1 TAATTTTACAAGTCGAGGG-TATTTCAA
* * **
28463170 TAATTTTACAA-ACTAGGGGTATTTTGA
1 TAATTTTACAAGTCGA-GGGTATTTCAA
28463197 TAATTTTACAA
1 TAATTTTACAA
28463208 ACCAGGGGTA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.06
27 69 0.90
28 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:28463208 original size:27 final size:27
Alignment explanation
Indices: 28463132--28463418 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
28463122 TATAGGTCGA
** * *
28463132 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
28463159 GGATATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
28463186 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
28463213 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
28463240 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
28463267 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** ** *
28463294 GGGTATTTTGGTAATTTTGTAAAGTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
28463321 TGGTGTTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
28463348 GGGTATTTTGGTGATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
28463375 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
28463402 GGATATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
28463419 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 41, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 219 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:28463424 original size:108 final size:108
Alignment explanation
Indices: 28463157--28463425 Score: 403
Period size: 108 Copynumber: 2.5 Consensus size: 108
28463147 TTCACAAATC
* * * ** *
28463157 AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
1 AGGG-TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
*
28463222 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
65 GGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAA
** * *
28463266 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAGTAATGGTGTTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
*
28463331 GTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACAA
66 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAA
* *
28463374 AGGGTATTTTAGTAATTTTACAAACCAGGGATATTTTGGTAATTTGGTAAAC
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
28463426 TAAAGTATTC
Statistics
Matches: 145, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
108 141 0.97
109 4 0.03
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.39
Consensus pattern (108 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAA
Found at i:28466699 original size:29 final size:29
Alignment explanation
Indices: 28466664--28466735 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
28466654 GTTGTGAGAT
* *
28466664 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
28466693 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
28466722 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
28466736 TGTGGTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:28474408 original size:29 final size:29
Alignment explanation
Indices: 28474373--28474446 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
28474363 GTTGTGAGAT
* *
28474373 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
28474402 TGGCACTAAGTGTGTGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
28474431 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28474447 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:28476667 original size:29 final size:29
Alignment explanation
Indices: 28476601--28476741 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 29
28476591 TACATAATTG
* *
28476601 CATATGGCCCA-CTTGGCCC-AATCTCATT
1 CATATGGCCCATC-AGGCCCAAATCACATT
* *
28476629 TATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAAATCACATT
* *
28476658 CATATGGCCCATCAGGCCCAATTCATATT
1 CATATGGCCCATCAGGCCCAAATCACATT
*
28476687 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATCAGGCCCAAATCACATT
* * *
28476716 TATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATCAGGCCCAAATCAC
28476742 CTTATATTCA
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
28 15 0.15
29 85 0.85
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAAATCACATT
Found at i:28479746 original size:20 final size:22
Alignment explanation
Indices: 28479717--28479756 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
28479707 ATTGATTTAT
*
28479717 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
28479737 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
28479757 CGTATTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:28482111 original size:19 final size:19
Alignment explanation
Indices: 28482089--28482125 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28482079 TTATTATAGG
28482089 CCAACTGTATTAAAATGGC
1 CCAACTGTATTAAAATGGC
* *
28482108 CCAACTGTGTTAATATGG
1 CCAACTGTATTAAAATGG
28482126 GCAAGGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
CCAACTGTATTAAAATGGC
Found at i:28484245 original size:25 final size:24
Alignment explanation
Indices: 28484216--28484265 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
28484206 CTTCAAAGTC
28484216 TGCAACACAATCCTTAAGTGATGCA
1 TGCAACACAATCCTTAAGTG-TGCA
*
28484241 TGCAACACAATTCTTAAGTGTGCA
1 TGCAACACAATCCTTAAGTGTGCA
28484265 T
1 T
28484266 CATACTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (24 bp):
TGCAACACAATCCTTAAGTGTGCA
Found at i:28491772 original size:300 final size:300
Alignment explanation
Indices: 28491189--28491773 Score: 680
Period size: 300 Copynumber: 1.9 Consensus size: 300
28491179 TAACATCCCG
* * * *
28491189 AATTAGGGCCTAGTTGAAACAGTGGTTTTGAGACCAAAAATCTGTGTTAGAAATAACTATTTTAT
1 AATTAGGGCCTAATCGAAACAGTGGTTTTGAGACCAAAAATCTGAGATAGAAATAACTATTTTAT
* * * * *
28491254 GATTATGATGAGGTTTATCTTATGAATGCATGCTTGTGTGAAAGTTTCATGAAGAAATTCTATGC
66 GATTATGATGAGGTCTATCATATGAATGCATGATTGTGTGAAAATTTCATGAAGAAATTATATGC
**
28491319 ATAAAATATCTAATTGCATTTTAGGGACGAAACTAAATAAAGCGCAAAACTTGCATTCTAGAAAC
131 ATAAAATATCTAATTGCAAGTTAGGGACGAAACTAAATAAAGCGCAAAACTTGCATTCTAGAAAC
* * *
28491384 TTTAAGCATGAAATTGCATTAGATTATGAATTATAAGGTCCTAATTAACAATTTGACCAATTTCT
196 TTTAAGCATGAAATTGCATTAGAATATGAATTAGAAGGTCCTAAATAACAATTTGACCAATTTCT
28491449 AAAATTTTGGACAAAAATGGACATGCATTGTAATATCCTA
261 AAAATTTTGGACAAAAATGGACATGCATTGTAATATCCTA
* * * * *
28491489 AATTAGGGCCTAATCGGAATAGTGGTTTTGTGACCACAAATCTGAGATAGAAATAATTATTTTAT
1 AATTAGGGCCTAATCGAAACAGTGGTTTTGAGACCAAAAATCTGAGATAGAAATAACTATTTTAT
** * * *
28491554 GATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTATATGC
66 GATTATGATGAGGTCTATCATATGAATGCATGATTGTGTGAAAATTTCATGAAGAAATTATATGC
* * * * * * * *
28491619 ATAAAGT-GCTTAATTTG-AAGTTATGGACTAAATTGAAT-AAGTTGCAAAACTTTCATTCTAG-
131 ATAAAATATC-TAA-TTGCAAGTTAGGGACGAAACTAAATAAAG-CGCAAAACTTGCATTCTAGA
* * * * * * * * *
28491680 AAGTTTCTAGTATGAAATTGC-TTTGAAATATTAATTAGGAGGTCTTAAAT-ATAATTTTACCAA
193 AACTTT-AAGCATGAAATTGCATTAG-AATATGAATTAGAAGGTCCTAAATAACAATTTGACCAA
*
28491743 TTTCT-AAGTTTATGGACAAAAATTGGACATG
256 TTTCTAAAATTT-TGGACAAAAA-TGGACATG
28491774 GATGGAATTT
Statistics
Matches: 236, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
298 5 0.02
299 38 0.16
300 190 0.81
301 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (300 bp):
AATTAGGGCCTAATCGAAACAGTGGTTTTGAGACCAAAAATCTGAGATAGAAATAACTATTTTAT
GATTATGATGAGGTCTATCATATGAATGCATGATTGTGTGAAAATTTCATGAAGAAATTATATGC
ATAAAATATCTAATTGCAAGTTAGGGACGAAACTAAATAAAGCGCAAAACTTGCATTCTAGAAAC
TTTAAGCATGAAATTGCATTAGAATATGAATTAGAAGGTCCTAAATAACAATTTGACCAATTTCT
AAAATTTTGGACAAAAATGGACATGCATTGTAATATCCTA
Found at i:28494977 original size:27 final size:27
Alignment explanation
Indices: 28494947--28495087 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
28494937 TAAGTTGTAA
* * *
28494947 AATTACCAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
28494974 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
28495001 AATTATTGAAATACCCGT-TAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28495027 AATTACCGAAATACCCCAGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
28495054 AATTATCGAGATACCCTTGT-GCGGTAA
1 AATTACCGAAATACCCCTGTAG-GGTAG
28495081 AATTACC
1 AATTACC
28495088 ATTTTGCCCC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.24
27 73 0.76
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:28495034 original size:53 final size:54
Alignment explanation
Indices: 28494955--28495087 Score: 178
Period size: 53 Copynumber: 2.5 Consensus size: 54
28494945 AAAATTACCA
* * *
28494955 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCGTGTAAGGTAGAATTACCGAAATACCCCAGTAGGGTAGAATTATCG
*
28495009 AAATACCCGT-TAGGGTAGAATTACCGAAATACCCCAGTAGGGTAGAATTATCG
1 AAATACCCGTGTAAGGTAGAATTACCGAAATACCCCAGTAGGGTAGAATTATCG
* * ** *
28495062 AGATACCCTTGTGCGGTAAAATTACC
1 AAATACCCGTGTAAGGTAGAATTACC
28495088 ATTTTGCCCC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 48 0.70
54 21 0.30
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
AAATACCCGTGTAAGGTAGAATTACCGAAATACCCCAGTAGGGTAGAATTATCG
Found at i:28495782 original size:27 final size:26
Alignment explanation
Indices: 28495738--28495789 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
28495728 CTCGCTGCAA
*
28495738 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
28495765 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
28495790 CCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:28497995 original size:43 final size:43
Alignment explanation
Indices: 28497883--28498047 Score: 111
Period size: 43 Copynumber: 3.7 Consensus size: 43
28497873 TTCGAACTCA
* *
28497883 TTGAGTGGTCC-AGGTTCGTGA-GGTATGT-AGTATCCAAGCTCG
1 TTGAGTGGTCCGA-GTTCATGATGG-ATGTGAGCATCCAAGCTCG
* * * * * * *
28497925 TTGAGAGGTCTGAGTTTATTATAGATGTGAGCATCCGAGCTTG
1 TTGAGTGGTCCGAGTTCATGATGGATGTGAGCATCCAAGCTCG
28497968 TTGAGTGGTCCGAGTTCATGATGGATGTGATTCATGTAACATCCAAGCTCG
1 TTGAGTGGTCCGAGTTCATGATGGATGTG----A-G---CATCCAAGCTCG
* * *
28498019 TTGAGAGGTCCAAGTTCATTATGGATGTG
1 TTGAGTGGTCCGAGTTCATGATGGATGTG
28498048 TTACATGTTA
Statistics
Matches: 93, Mismatches: 19, Indels: 13
0.74 0.15 0.10
Matches are distributed among these distances:
42 18 0.19
43 37 0.40
47 1 0.01
48 1 0.01
51 36 0.39
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (43 bp):
TTGAGTGGTCCGAGTTCATGATGGATGTGAGCATCCAAGCTCG
Found at i:28498035 original size:51 final size:51
Alignment explanation
Indices: 28497956--28498055 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
28497946 TAGATGTGAG
* * * *
28497956 CATCCGAGCTTGTTGAGTGGTCCGAGTTCATGATGGATGTGATT-CATGTAA
1 CATCCAAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGTG-TTACATGTAA
*
28498007 CATCCAAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGTGTTACATGT
1 CATCCAAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGTGTTACATGT
28498056 TATGCAGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (51 bp):
CATCCAAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGTGTTACATGTAA
Found at i:28500264 original size:57 final size:56
Alignment explanation
Indices: 28500174--28500298 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 56
28500164 GGGATGTATC
* *
28500174 GCACACTAAGTGCCATCCTAGATGTCTCGCACACTAAGTGCCATCTTCAATAATTT
1 GCACACTAAGTGCCATCCTAGATGTCTCGCACACTAAGTGCCATCCTCAATAATTA
* * * *
28500230 GCACACTAAGTGCTATTTCTAGATGTTTTGCACACTAAGTGCCATCCTCAATAATTA
1 GCACACTAAGTGCCA-TCCTAGATGTCTCGCACACTAAGTGCCATCCTCAATAATTA
28500287 GCACACTAAGTG
1 GCACACTAAGTG
28500299 TCGTTTTCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 14 0.23
57 48 0.77
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (56 bp):
GCACACTAAGTGCCATCCTAGATGTCTCGCACACTAAGTGCCATCCTCAATAATTA
Found at i:28500268 original size:29 final size:29
Alignment explanation
Indices: 28500174--28500274 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 29
28500164 GGGATGTATC
* * *
28500174 GCACACTAAGTGCCA-TCCTAGATGTCTC
1 GCACACTAAGTGCCATTTCTAGATGTTTT
**
28500202 GCACACTAAGTGCCATCTTC-A-ATAATTT
1 GCACACTAAGTGCCAT-TTCTAGATGTTTT
*
28500230 GCACACTAAGTGCTATTTCTAGATGTTTT
1 GCACACTAAGTGCCATTTCTAGATGTTTT
28500259 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
28500275 CCTCAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.05
28 34 0.57
29 21 0.35
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
GCACACTAAGTGCCATTTCTAGATGTTTT
Found at i:28502387 original size:23 final size:23
Alignment explanation
Indices: 28502351--28502396 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
28502341 CTATCTCCTG
*
28502351 TTTAGTTTTATTTTTACTTGTAA
1 TTTAGGTTTATTTTTACTTGTAA
* *
28502374 TTTAGGTTTCTTTTTAGTTGTAA
1 TTTAGGTTTATTTTTACTTGTAA
28502397 GTATATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.63
Consensus pattern (23 bp):
TTTAGGTTTATTTTTACTTGTAA
Found at i:28503098 original size:32 final size:32
Alignment explanation
Indices: 28503062--28503125 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
28503052 ACTTAGTTTA
28503062 ATCTCACCTCCTTTGGGTATGATTGTAACAAC
1 ATCTCACCTCCTTTGGGTATGATTGTAACAAC
*
28503094 ATCTCGCCTCCTTTGGGTATGATTGTAACAAC
1 ATCTCACCTCCTTTGGGTATGATTGTAACAAC
28503126 CCGTTTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (32 bp):
ATCTCACCTCCTTTGGGTATGATTGTAACAAC
Found at i:28503456 original size:17 final size:18
Alignment explanation
Indices: 28503431--28503473 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
28503421 TAAATTTTGA
28503431 TTAAGTAATAAGGTTAAT
1 TTAAGTAATAAGGTTAAT
**
28503449 TT-AGTAATTTGGTTAAT
1 TTAAGTAATAAGGTTAAT
28503466 TTAAGTAA
1 TTAAGTAA
28503474 AAAGAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (18 bp):
TTAAGTAATAAGGTTAAT
Found at i:28504389 original size:29 final size:29
Alignment explanation
Indices: 28504355--28504432 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
28504345 GGGTTATACC
*
28504355 GATTTGGCTTTGAGCCATGAATATAAGCT
1 GATTTGGCTTCGAGCCATGAATATAAGCT
* * *
28504384 GATTTGGCTTCGAGGCATGAATATCATCT
1 GATTTGGCTTCGAGCCATGAATATAAGCT
*
28504413 GATTTGGCTTCGGGCCATGA
1 GATTTGGCTTCGAGCCATGA
28504433 TATCAGTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (29 bp):
GATTTGGCTTCGAGCCATGAATATAAGCT
Found at i:28519774 original size:56 final size:54
Alignment explanation
Indices: 28519655--28519810 Score: 174
Period size: 56 Copynumber: 2.8 Consensus size: 54
28519645 CATGACATAG
* * * *
28519655 CACGCCTCTCAATAGGGCTACATATGAGCACTCGGACCTAGCATGCATCACATTAC
1 CACGCCTCTCAATAGGGCTACATA--AGCTCCCGGACCTAGCATGTACCACATTAC
*
28519711 CACGCCTCTCAATAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATAATTA-
1 CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCTAGCATGTACCAC---ATTAC
* *
28519767 CATGCCTCTCAAT-GGGCTACACAAGCTCCCGGA-CTCAGCATGTA
1 CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCT-AGCATGTA
28519811 TCATGTCATC
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
54 22 0.25
55 26 0.30
56 36 0.41
57 4 0.05
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (54 bp):
CACGCCTCTCAATAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATTAC
Found at i:28544923 original size:19 final size:18
Alignment explanation
Indices: 28544889--28544927 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
28544879 GATATGATAC
*
28544889 TAAAATTATTTTAAAAAA
1 TAAAATTATATTAAAAAA
28544907 TAAAATATATATTAAAAAA
1 TAAAAT-TATATTAAAAAA
28544926 TA
1 TA
28544928 GGGAAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATTATATTAAAAAA
Found at i:28545239 original size:19 final size:19
Alignment explanation
Indices: 28545215--28545305 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
28545205 AATCATATCT
28545215 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
28545234 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
28545252 TCTAATATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
28545269 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
28545288 TCTAAGATTGCATGTCAT
1 TCTAAGATTGCATATCAT
28545306 TAAAGATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 35 0.54
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:28545266 original size:35 final size:36
Alignment explanation
Indices: 28545208--28545297 Score: 123
Period size: 35 Copynumber: 2.5 Consensus size: 36
28545198 AATACAAAAT
*
28545208 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG--TATCATATCTAAAATTG
*
28545244 CA-ATCATATCTAATATTGTATCATATCTAAAATTG
1 CATATCATATCTAAGATTGTATCATATCTAAAATTG
28545279 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
28545298 CATGTCATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 21 0.44
36 18 0.38
37 9 0.19
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (36 bp):
CATATCATATCTAAGATTGTATCATATCTAAAATTG
Found at i:28545710 original size:45 final size:45
Alignment explanation
Indices: 28545655--28545837 Score: 251
Period size: 45 Copynumber: 4.1 Consensus size: 45
28545645 AGAGGGTGAT
* *
28545655 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
28545700 ATCTGTTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
** * *
28545745 ATCTACT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
28545789 ATCTGTTATCTCCGATTTGCTCCCCGCCTAATATAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
28545834 ATCT
1 ATCT
28545838 ATCATTTTGG
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 39 0.32
45 83 0.68
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:28545820 original size:89 final size:89
Alignment explanation
Indices: 28545669--28545838 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
28545659 GCTATCTTTG
* *
28545669 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTACTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGCCTAATAC
28545734 AGAGACGCCAAATCTACTTCTTCA
66 AGAGACGCCAAATCTACTTCTTCA
* * * *
28545758 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGCCTAATAT
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGCCTAATAC
*
28545823 AGAGATGCCAAATCTA
66 AGAGACGCCAAATCTA
28545839 TCATTTTGGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGCCTAATAC
AGAGACGCCAAATCTACTTCTTCA
Found at i:28545999 original size:78 final size:78
Alignment explanation
Indices: 28545868--28546162 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
28545858 ATGTAAACAC
* ** * *
28545868 ATGAAGGTCAGATCTGCTATGTTTTTTATCTGCTCCCCATCTAATATAGAGATGACAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
28545933 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
28545946 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
28546010 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
28546024 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
28546089 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
28546102 ATGAAGGTTAGATCTGCTATGTCTTCAATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATC
28546163 TGTTTCTTCG
Statistics
Matches: 198, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 194 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:28546492 original size:220 final size:220
Alignment explanation
Indices: 28546104--28546697 Score: 940
Period size: 220 Copynumber: 2.7 Consensus size: 220
28546094 CTGCTTCAAT
*
28546104 GAAGGTTAGATCTGCTATGTCTTCAATCTGCTCTCCGTCGAATAT-AGAGATGCCAAATCTGTTT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGA-AGATGCCAAATCTGTTT
* *
28546168 CTTCGATTTGTTCTCTAACAGTACAGAAATGCTAAATCATCTTAGATCTGCTTCAGCGTAAACAC
65 CTTCGATTTGTTCTCTGACAGTACAGAGATGCTAAATCATCTTAGATCTGCTTCAGCGTAAACAC
* * * * **
28546233 ATAAAAGCCAAATCTGCTATGTCTTCGATCTGATCCTTGTAAGCGCAAGGATGCCAAATCATCTT
130 ATGAAAGCCAAATCTGCTATGTCTTTGATATGATCCTTGTAAACAAAAGGATGCCAAATCATCTT
28546298 GGATCTACTTCGATGTGAAAACATCC
195 GGATCTACTTCGATGTGAAAACATCC
* * * *
28546324 GAAGGTTAGATCTTCTATGTCTTCGATCTTCTTTCCGTTGAATATGAAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTC
* *
28546389 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCTAAATCATCTTAGATCTGCTTCAGCGTAAACACA
*
28546454 TGAAAGCCAAATCTGCTATGTCTTTGATATGCTCCTTGTAAACAAAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATATGATCCTTGTAAACAAAAGGATGCCAAATCATCTTG
*
28546519 GATCTACTTCGATGTGAAAACATCT
196 GATCTACTTCGATGTGAAAACATCC
*
28546544 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGTAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTC
* ** * *
28546609 TTCGATTTGTTCTCTGACAATGTAGAGATGTTAAATCATCTTAGATCTGCTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCTAAATCATCTTAGATCTGCTTCAGCGTAAACACA
* *
28546674 TGAAGGTCAAATCTGCTATG-CTTT
131 TGAAAGCCAAATCTGCTATGTCTTT
28546698 AGCCTGTTAC
Statistics
Matches: 343, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
219 4 0.01
220 338 0.99
221 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGCTAAATCATCTTAGATCTGCTTCAGCGTAAACACA
TGAAAGCCAAATCTGCTATGTCTTTGATATGATCCTTGTAAACAAAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:28555937 original size:46 final size:46
Alignment explanation
Indices: 28555887--28556058 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
28555877 TGAGCATCCA
*
28555887 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
28555933 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * *
28555980 AACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
*
28556026 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28556059 GCGTGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:28556039 original size:93 final size:93
Alignment explanation
Indices: 28555880--28556050 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
28555870 GGATGGTTGA
* * *
28555880 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
28555945 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
28555973 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
28556038 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
28556051 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:28556315 original size:19 final size:20
Alignment explanation
Indices: 28556278--28556315 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
28556268 ATAAGGTGGT
28556278 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
28556298 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
28556316 TCGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:28557508 original size:27 final size:26
Alignment explanation
Indices: 28557473--28557584 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
28557463 AGCATGGCTG
*
28557473 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGTCA
* *
28557499 CCAGATACAGATAACCGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGTCA
28557527 CCAGAACAGATATATGTGGCAGA-TCCA
1 CCAGAACAGATA-ATGTGGCAGAGT-CA
* * *
28557554 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGTCA
28557581 CCAG
1 CCAG
28557585 GACTCTTCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGTCA
Found at i:28557537 original size:54 final size:54
Alignment explanation
Indices: 28557473--28557584 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
28557463 AGCATGGCTG
28557473 CCAGAACAGATA-ATGTGACAGAGT-CACCAGATACAGATAACCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGA-TCCACCAGAT-CAGATAACCGTGGCAGAGCCA
* ** *
28557527 CCAGAACAGATATATGTGGCAGATCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGATCCACCAGATCAGATAACCGTGGCAGAGCCA
28557581 CCAG
1 CCAG
28557585 GACTCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGATCCACCAGATCAGATAACCGTGGCAGAGCCA
Found at i:28558022 original size:16 final size:15
Alignment explanation
Indices: 28558001--28558031 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
28557991 CAAAATATCT
28558001 GCTTTTCGGCATTTCG
1 GCTTTTCGGC-TTTCG
28558017 GCTTTTCGGCTTTCG
1 GCTTTTCGGCTTTCG
28558032 CCGATCTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.03, C:0.26, G:0.26, T:0.45
Consensus pattern (15 bp):
GCTTTTCGGCTTTCG
Found at i:28561154 original size:28 final size:26
Alignment explanation
Indices: 28561061--28561172 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
28561051 AGGAAGCGTC
* * *
28561061 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-GTTATCTGTT
*
28561088 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGT-TATCTGTT
*
28561115 CTGGTGGCTCTGCCACGGTTATCGGTAT
1 CTGGTGGCTCTGCCAC-GTTATCTGT-T
* *
28561143 CTGGTGACTCTGTCACGTTATCTGTT
1 CTGGTGGCTCTGCCACGTTATCTGTT
28561169 CTGG
1 CTGG
28561173 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACGTTATCTGTT
Found at i:28561165 original size:54 final size:54
Alignment explanation
Indices: 28561061--28561172 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
28561051 AGGAAGCGTC
* *
28561061 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCGGATCTGGTGACTCTGCCACATATATCTGTT
* ** * *
28561115 CTGGTGGCTCTGCCACGGTTATCGGTATCTGGTGACTCTGTCACGT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCGG-ATCTGGTGACTCTGCCACATATATCTGTT
28561169 CTGG
1 CTGG
28561173 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCGGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:28563239 original size:22 final size:21
Alignment explanation
Indices: 28563204--28563279 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
28563194 AAAAGGTATC
* *
28563204 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
28563225 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
28563248 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
28563267 TGC-AATCATATCT
1 TACAAATCATATCT
28563280 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:28563296 original size:35 final size:37
Alignment explanation
Indices: 28563233--28563330 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
28563223 ATTACAAAAT
28563233 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
28563269 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
28563304 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
28563331 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:28563338 original size:17 final size:19
Alignment explanation
Indices: 28563240--28563330 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
28563230 AATCATATCT
28563240 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
28563259 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
28563277 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
28563294 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
28563313 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
28563331 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:28567226 original size:26 final size:27
Alignment explanation
Indices: 28567179--28567230 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
28567169 TGTGTGTTAT
* *
28567179 TTTTTTTTTCATAGTTTCAATTTTTAA
1 TTTTGTTTTCATAATTTCAATTTTTAA
*
28567206 TTTTGTTTTC-TAATTTTAATTTTTA
1 TTTTGTTTTCATAATTTCAATTTTTA
28567231 GTATTGATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTTGTTTTCATAATTTCAATTTTTAA
Found at i:28572637 original size:50 final size:50
Alignment explanation
Indices: 28572564--28572949 Score: 371
Period size: 50 Copynumber: 7.7 Consensus size: 50
28572554 TAAGACAAAT
*
28572564 TTAGGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
28572614 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
28572664 TTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
28572715 TTAGGTCACGTGTGTAGTACTAACTACAGGCTACTACGTGTACCATATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * * *
28572765 ATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGAACCCG-TTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--G
* * * * * * *
28572816 TTCGATCACGTGTGTAGTATTAAGTGTAGGCTAGTACGTGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
28572866 ATAAGTCAC-TGTGTAGTACTAAGTGTAAGCTACTAGGTGTACCCGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
28572915 ATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACT
28572950 TTGCGTACCA
Statistics
Matches: 263, Mismatches: 68, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
49 42 0.16
50 148 0.56
51 72 0.27
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:28572712 original size:101 final size:102
Alignment explanation
Indices: 28572518--28572800 Score: 297
Period size: 101 Copynumber: 2.8 Consensus size: 102
28572508 GTTGTGAGAA
* * ** *
28572518 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAAATTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCAAGACAAATTTAGATCACGTGTGTAGTA
* * *
28572583 CTAAGTGCATGCTACTACGTGTACCAGATTGTTAGGT
66 CTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
** * * *
28572620 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCCGA-TAGTTTCGATCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCAAGACAAATTTAGATCACGTGTGTAGTA
* *
28572684 CTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGT
66 CTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
* * * * * * * * *
28572721 CACGTGTGTAGTACTAACTACAGGCTACTA--CGTG-TA-CCATATTGATAGGTCGCATGTGTAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCAAGACAAATT--TAGATCACGTGTGTAG
28572782 TACTAAGTGCAGGCTACTA
64 TACTAAGTGCAGGCTACTA
28572801 TGCGAACCCG
Statistics
Matches: 149, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
98 2 0.01
99 4 0.03
100 30 0.20
101 78 0.52
102 35 0.23
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (102 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCAAGACAAATTTAGATCACGTGTGTAGTA
CTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
Found at i:28572840 original size:151 final size:151
Alignment explanation
Indices: 28572564--28572954 Score: 586
Period size: 151 Copynumber: 2.6 Consensus size: 151
28572554 TAAGACAAAT
* * *
28572564 TTAGGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
** **
28572629 AGTACTAAGTGCAGGCTACTATGCGTGCCCGATAGTTTCGATCACGTGTGTAGTACTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGAACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGTAG
28572694 GCTACTACATGTATCAGATGG
131 GCTACTACATGTATCAGATGG
* * * *
28572715 TTAGGTCACGTGTGTAGTACTAACTACAGGCTACTACGTGTACCATATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
* *
28572780 AGTACTAAGTGCAGGCTACTATGCGAACCCGTTAACTTCGATCACGTGTGTAGTATTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGAACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGTAG
* *
28572845 GCTAGTACGTGTATCAGATGG
131 GCTACTACATGTATCAGATGG
* * * * *
28572866 ATAAGTCAC-TGTGTAGTACTAAGTGTAAGCTACTAGGTGTACCCGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
*
28572930 AGTACTAAGTGCAGGCTACTTTGCG
66 AGTACTAAGTGCAGGCTACTATGCG
28572955 TACCAGAGAG
Statistics
Matches: 216, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
150 72 0.33
151 144 0.67
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGAACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGTAG
GCTACTACATGTATCAGATGG
Found at i:28572879 original size:100 final size:101
Alignment explanation
Indices: 28572720--28572900 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
28572710 GATGGTTAGG
* * * *
28572720 TCACGTGTGTAGTACTAACTACAGGCTACTACGTGTACCATATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAACTACAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
*
28572785 TAAGTGCAGGCTACTATGCGAACCCGTTAACTTCGA
66 TAAGTGCAAGCTACTATGCGAACCCGTTAACTTCGA
* * ** * *
28572821 TCACGTGTGTAGTATTAAGTGTAGGCTAGTACGTGTATCAGATGGATAAGTCAC-TGTGTAGTAC
1 TCACGTGTGTAGTACTAACTACAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
*
28572885 TAAGTGTAAGCTACTA
66 TAAGTGCAAGCTACTA
28572901 GGTGTACCCG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 24 0.35
101 44 0.65
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAACTACAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATGCGAACCCGTTAACTTCGA
Found at i:28576219 original size:27 final size:27
Alignment explanation
Indices: 28576189--28576385 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
28576179 GGCAAAATGG
* * *
28576189 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
28576216 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
28576243 TAATTGTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
28576270 TACTTCTACCCTGCAGGGGTATTCCG-
1 TAATTCTACCCTACAAGGGTATTTCGA
*
28576296 TAATTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
28576323 TAATTCTACCCTATAGGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
28576349 GTAATTCTACCTTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAAGGGTATTTCGA
28576377 TAATTCTAC
1 TAATTCTAC
28576386 AACTTATCCT
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 22 0.15
27 124 0.85
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:28576247 original size:54 final size:54
Alignment explanation
Indices: 28576189--28576385 Score: 263
Period size: 54 Copynumber: 3.7 Consensus size: 54
28576179 GGCAAAATGG
* * *
28576189 TAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
* * * *
28576243 TAATTGTACCCTACAAGGGTATTTCGATACTTCTACCCTGCAGGGGTATTCCG-
1 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
* *
28576296 TAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
* * *
28576349 GTAATTCTACCTTACAGGGGTATTTCGGTAATTCTAC
1 -TAATTCTACCCTACAAGGGTATTTCGATAATTCTAC
28576386 AACTTATCCT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 46 0.37
54 79 0.63
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
Found at i:28576333 original size:80 final size:81
Alignment explanation
Indices: 28576188--28576385 Score: 240
Period size: 80 Copynumber: 2.5 Consensus size: 81
28576178 GGGCAAAATG
* * * * * * *
28576188 GTAATTTTACCCCACAAGGGTATCT-CGATAATTCTACCCTACAGGGGTATTTCGATAATTGTAC
1 GTAATTCTACCCTACAGGGGTATTTCCG-TAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
28576252 CCTACAAGGGTATTTC-
65 CCTACAAGGGTATTTCA
* *
28576268 GATACTTCTACCCTGCAGGGGTA-TTCCGTAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
1 G-TAATTCTACCCTACAGGGGTATTTCCGTAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
* *
28576332 CCTATAGGGGTATTTCA
65 CCTACAAGGGTATTTCA
* *
28576349 GTAATTCTACCTTACAGGGGTATTTCGGTAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCCGTAATTCTAC
28576386 AACTTATCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 67 0.68
81 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCCGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACC
CTACAAGGGTATTTCA
Found at i:28576374 original size:107 final size:107
Alignment explanation
Indices: 28576188--28576385 Score: 290
Period size: 107 Copynumber: 1.9 Consensus size: 107
28576178 GGGCAAAATG
* * *
28576188 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGATAATTGTACC
1 GTAATTCTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
*
28576253 CTACAAGGGTATTTCGATACTTCTACCCTGCAGGGGTATTCC
66 CTACAAGGGTATTTCGATAATTCTACCCTGCAGGGGTATTCC
* * *
28576295 GTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC-AGTAATTCTAC
1 GTAATTCTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGA-TAATTCTAC
* * *
28576359 CTTACAGGGGTATTTCGGTAATTCTAC
65 CCTACAAGGGTATTTCGATAATTCTAC
28576386 AACTTATCCT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
106 1 0.01
107 79 0.99
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (107 bp):
GTAATTCTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
CTACAAGGGTATTTCGATAATTCTACCCTGCAGGGGTATTCC
Found at i:28582809 original size:26 final size:27
Alignment explanation
Indices: 28582780--28582833 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
28582770 TCACACAAGT
*
28582780 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
28582806 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
28582833 T
1 T
28582834 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:28582921 original size:54 final size:53
Alignment explanation
Indices: 28582834--28583033 Score: 265
Period size: 54 Copynumber: 3.7 Consensus size: 53
28582824 GGGGCAAAAT
* * * **
28582834 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACC-TACAGAGGTATTTC
* *
28582888 GGTAATTCTACCCTACAGGGGTATTTCAATAATTCTATCCCACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTA-CCTACAGAGGTATTTC
* * *
28582942 GGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTA-CCTACAGAGGTATTTC
* *
28582996 GGTAATTCTACCTTACAAGGGTATTTCAATACTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
28583034 AACTTATCCA
Statistics
Matches: 131, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 128 0.98
55 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCTACAGAGGTATTTC
Found at i:28583033 original size:27 final size:27
Alignment explanation
Indices: 28582834--28583022 Score: 213
Period size: 27 Copynumber: 7.0 Consensus size: 27
28582824 GGGGCAAAAT
* * *
28582834 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
28582861 GGTAATTCTACCTTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
28582888 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
28582915 AATAATTCTATCCC-AC-AGAGGTATTTC
1 GGTAATTCTA-CCCTACAAG-GGTATTTC
*
28582942 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
28582969 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
28582996 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
28583023 AATACTTCTA
Statistics
Matches: 136, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.04
27 125 0.92
28 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:28583033 original size:81 final size:80
Alignment explanation
Indices: 28582833--28583022 Score: 247
Period size: 81 Copynumber: 2.3 Consensus size: 80
28582823 AGGGGCAAAA
* * * **
28582833 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGAGGTATTTCGGTAATTCTA
1 TGGTAATTCTA-CCCACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATAATTCTA
28582898 CCCTACAGGGGTATTT
65 CCCTACAGGGGTATTT
*** *
28582914 CAATAATTCTATCCCAC-AGAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
1 TGGTAATTCTA-CCCACAAG-GGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATAATTCT
28582978 ACCCTACAGGGGTATTT
64 ACCCTACAGGGGTATTT
*
28582995 TGGTAATTCTACCTTACAAGGGTATTTC
1 TGGTAATTCTACC-CACAAGGGTATTTC
28583023 AATACTTCTA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
80 4 0.04
81 86 0.93
82 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (80 bp):
TGGTAATTCTACCCACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATAATTCTAC
CCTACAGGGGTATTT
Found at i:28583950 original size:336 final size:336
Alignment explanation
Indices: 28583337--28584011 Score: 1260
Period size: 336 Copynumber: 2.0 Consensus size: 336
28583327 ACCAGAGTTT
28583337 AAAACCAACACCAACTCTTGCCATCCCAACATAGCAAAATAATCAACCTTTGCGTGCCAAGGGAT
1 AAAACCAACACCAACTCTTGCCATCCCAACATAGCAAAATAATCAACCTTTGCGTGCCAAGGGAT
28583402 TCGAACCAAAGCCCTCTCACATGCCAACTCAAGCCACCACCACTAGGCCATCAACTCATTTGTGT
66 TCGAACCAAAGCCCTCTCACATGCCAACTCAAGCCACCACCACTAGGCCATCAACTCATTTGTGT
* * *
28583467 CATAAATCCAACACATTAAACTTTAAAGCGCACCTACTTGCTTCTAGATTTATTGAAAAGAAAAA
131 CATAAATCCAACACATTAAACTTTAAAGCGCACCTACTTGCTTCCAAATTTATTAAAAAGAAAAA
*
28583532 CCAAAATATATTGCAAGAGCCAAGACTTGAACCTTGGACCCCTTGCTTCCTCTATGGCGTCACTT
196 CCAAAATATATTGCAAGAGCCAAGACTTGAACCGTGGACCCCTTGCTTCCTCTATGGCGTCACTT
*
28583597 TCTTGCCCCCTAAGTGGCGCCACCTTACCACTACACCACACTCCTTTTTGTGTCATCTTTTACCC
261 CCTTGCCCCCTAAGTGGCGCCACCTTACCACTACACCACACTCCTTTTTGTGTCATCTTTTACCC
28583662 CTTTACTCTCA
326 CTTTACTCTCA
*
28583673 AAAACCAACACTAACTCTTGCCATCCCAACATAGCAAAATAATCAACCTTTGCGTGCCAAGGGAT
1 AAAACCAACACCAACTCTTGCCATCCCAACATAGCAAAATAATCAACCTTTGCGTGCCAAGGGAT
*
28583738 TCGAACCAAAGCCCTCTCACATGCCAACTCAAGCCACCACCACTAGGCCATCAACTCATTTGTTT
66 TCGAACCAAAGCCCTCTCACATGCCAACTCAAGCCACCACCACTAGGCCATCAACTCATTTGTGT
28583803 CATAAATCCAACACATTAAACTTTAAAGCGCACCTACTTGCTTCCAAATTTATTAAAAAGAAAAA
131 CATAAATCCAACACATTAAACTTTAAAGCGCACCTACTTGCTTCCAAATTTATTAAAAAGAAAAA
*
28583868 CCAAAATTTATTGCAAGAGCCAAGACTTGAACCGTGGACCCCTTGCTTCCTCTATGGCGTCACTT
196 CCAAAATATATTGCAAGAGCCAAGACTTGAACCGTGGACCCCTTGCTTCCTCTATGGCGTCACTT
* *
28583933 CCTTGCCCCCTAAGTGGCGCCACCTTGCCACTACCCCACACTCCTTTTTGTGTCATCTTTTACCC
261 CCTTGCCCCCTAAGTGGCGCCACCTTACCACTACACCACACTCCTTTTTGTGTCATCTTTTACCC
28583998 CTTTACTCTCA
326 CTTTACTCTCA
28584009 AAA
1 AAA
28584012 TTCTGAAGAC
Statistics
Matches: 329, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
336 329 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.26
Consensus pattern (336 bp):
AAAACCAACACCAACTCTTGCCATCCCAACATAGCAAAATAATCAACCTTTGCGTGCCAAGGGAT
TCGAACCAAAGCCCTCTCACATGCCAACTCAAGCCACCACCACTAGGCCATCAACTCATTTGTGT
CATAAATCCAACACATTAAACTTTAAAGCGCACCTACTTGCTTCCAAATTTATTAAAAAGAAAAA
CCAAAATATATTGCAAGAGCCAAGACTTGAACCGTGGACCCCTTGCTTCCTCTATGGCGTCACTT
CCTTGCCCCCTAAGTGGCGCCACCTTACCACTACACCACACTCCTTTTTGTGTCATCTTTTACCC
CTTTACTCTCA
Found at i:28586501 original size:25 final size:25
Alignment explanation
Indices: 28586473--28586604 Score: 122
Period size: 25 Copynumber: 5.3 Consensus size: 25
28586463 AGCTATCTAA
*
28586473 AAAGCCTATGTGGCATATTATTTGG
1 AAAGCCTATGTGGCTTATTATTTGG
* * **
28586498 AAAGCCTTTGTGGC-TAGTTATCTAA
1 AAAGCCTATGTGGCTTA-TTATTTGG
*
28586523 AAAGCCTATGTGGCGTATTATTTGG
1 AAAGCCTATGTGGCTTATTATTTGG
* * * * *
28586548 GAAGCCTTTGTGGCTTGTTATCTGA
1 AAAGCCTATGTGGCTTATTATTTGG
**
28586573 AAAGCCTATGTAACTTATTATTTGG
1 AAAGCCTATGTGGCTTATTATTTGG
*
28586598 GAAGCCT
1 AAAGCCT
28586605 TAGTGACCAG
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
24 2 0.02
25 79 0.95
26 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (25 bp):
AAAGCCTATGTGGCTTATTATTTGG
Found at i:28586621 original size:50 final size:50
Alignment explanation
Indices: 28586466--28586620 Score: 220
Period size: 50 Copynumber: 3.1 Consensus size: 50
28586456 CCTTTGTAGC
*
28586466 TATCTAAAAAGCCTATGTGGCATATTATTTGGAAAGCCTTTGTGGCTAGT
1 TATCTAAAAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGGCTAGT
* *
28586516 TATCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCTTTGTGGCTTGT
1 TATCTAAAAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGGCTAGT
* ** * * * *
28586566 TATCTGAAAAGCCTATGTAACTTATTATTTGGGAAGCCTTAGTGACCAGT
1 TATCTAAAAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGGCTAGT
28586616 TATCT
1 TATCT
28586621 GGAAAGTCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 94 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (50 bp):
TATCTAAAAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGGCTAGT
Found at i:28587506 original size:21 final size:20
Alignment explanation
Indices: 28587482--28587521 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
28587472 CATGTATTTT
*
28587482 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
28587503 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
28587522 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:28589052 original size:19 final size:20
Alignment explanation
Indices: 28589010--28589053 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
28589000 CTATATTAAC
** *
28589010 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
28589030 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
28589049 ACAGT
1 ACAGT
28589054 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:28594445 original size:39 final size:39
Alignment explanation
Indices: 28594368--28594499 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 39
28594358 CATAAATATA
* * * *
28594368 CTATCAGGAGAACCGTAATGCTAACAGGAGCGCAAATGTG
1 CTATCAAGAGCACC-TAATGCTAACAGGAGCACGAATGTG
* * *
28594408 CTTTCAAGAGCACCTAATGCTGACATGAGCACGAATGTG
1 CTATCAAGAGCACCTAATGCTAACAGGAGCACGAATGTG
* * *
28594447 CTATCAGGAGCA-CTACAGTGCTAATAGGAGCATGAATGTG
1 CTATCAAGAGCACCTA-A-TGCTAACAGGAGCACGAATGTG
28594487 C-ACTCAAGAGCAC
1 CTA-TCAAGAGCAC
28594500 TTATTTAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 3 0.04
39 33 0.45
40 38 0.51
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (39 bp):
CTATCAAGAGCACCTAATGCTAACAGGAGCACGAATGTG
Found at i:28594457 original size:20 final size:20
Alignment explanation
Indices: 28594434--28594487 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
28594424 ATGCTGACAT
28594434 GAGCACGAATGTGCT-ATCAG
1 GAGCACGAATGTGCTAAT-AG
*
28594454 GAGCACTACA-GTGCTAATAG
1 GAGCACGA-ATGTGCTAATAG
*
28594474 GAGCATGAATGTGC
1 GAGCACGAATGTGC
28594488 ACTCAAGAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (20 bp):
GAGCACGAATGTGCTAATAG
Found at i:28599154 original size:46 final size:46
Alignment explanation
Indices: 28599101--28599267 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 46
28599091 TCTCGACTTA
* *
28599101 ATGCCATAATGTCTTTCAATCATTGTCTTATTCACTTTCTAATATG
1 ATGCCATAATGTCTTTCAATCATGGTCTTATTCACTTTCCAATATG
* *
28599147 ATGCCATAGTGTCTTTTAA-CTATGGTCTTATTCACTTTCCAATATG
1 ATGCCATAATGTCTTTCAATC-ATGGTCTTATTCACTTTCCAATATG
* * * * *
28599193 ATGCCATAGT-TCCTTTCAATTATGGTCTTATTCATTTTCGATTA-G
1 ATGCCATAATGT-CTTTCAATCATGGTCTTATTCACTTTCCAATATG
*
28599238 ATGCGATAATGTCTTTCAA-CTATGGTCTTA
1 ATGCCATAATGTCTTTCAATC-ATGGTCTTA
28599268 CTCATCTGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
45 27 0.26
46 77 0.74
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.44
Consensus pattern (46 bp):
ATGCCATAATGTCTTTCAATCATGGTCTTATTCACTTTCCAATATG
Found at i:28599286 original size:45 final size:45
Alignment explanation
Indices: 28599101--28599531 Score: 343
Period size: 45 Copynumber: 9.7 Consensus size: 45
28599091 TCTCGACTTA
* * *
28599101 ATGCCATAATGTCTTTCAA-TCATTGTCTTATTCACTTTCT-AAT-ATG
1 ATGCCATAGTGTCTTTCAACT-ATGGTCTTACTCA---TCTGAATAATG
* * * *
28599147 ATGCCATAGTGTCTTTTAACTATGGTCTTATTCACTTTCCAAT-ATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCA-TCT-GAATAATG
* * * *
28599193 ATGCCATAGT-TCCTTTCAATTATGGTCTTATTCATTTTCG-ATTA-G
1 ATGCCATAGTGT-CTTTCAACTATGGTCTTACTCA-TCT-GAATAATG
* * *
28599238 ATGCGATAATGTCTTTCAACTATGGTCTTACTCATCTGAATCATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
* * **
28599283 ATGCTATAGTGTC-TTCAGCTATGGTCTTA-TTGTCTGAATAATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
* * * * *
28599326 ATGCCATAGCGGCTTTCAGCTAGGGTCTTACTCGTCTGAATAATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
** * * * *
28599371 ATGCCATAACGTCTTTCAGCTATGATCTTACTCGTTTGAATAATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
* *
28599416 ATCCCATAGCGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
* * *
28599461 ATG-C-----GTCTTTCAGCTATGATCTTACTCGTCTGAATAATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
* * *
28599500 ATGCCATAGCGTCTTTCAGCTATGGTCGTACT
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACT
28599532 GTCTTGATCT
Statistics
Matches: 326, Mismatches: 43, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.11
40 1 0.00
43 22 0.07
44 38 0.12
45 158 0.48
46 71 0.22
47 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
ATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATAATG
Found at i:28599355 original size:133 final size:133
Alignment explanation
Indices: 28599079--28599464 Score: 354
Period size: 133 Copynumber: 2.9 Consensus size: 133
28599069 TCTTAACCAT
* * *
28599079 GGTCTTATTTATTCTCGACTTA-ATGCCATAATGTCTTTCAA-TCATTGTCTTATTCACTTTCT-
1 GGTCTTATTCATTCTCGA-TTAGATGCCATAATGTCTTTCAACT-ATGGTCTTACTCA---TCTG
* * * **
28599141 AATATGATGCCATAGTGTCTTTTAACTATGGTCTTATTCACTTTCCAAT-ATGATGCCATAGTTC
61 AATATGATGCCATAGTGTCTTTCAACTATGGTCTTATT-A-TCT-GAATAATGATGCCATAGCGC
* *
28599205 CTTTCAATTAT
123 CTTTCAACTAG
* *
28599216 GGTCTTATTCATTTTCGATTAGATGCGATAATGTCTTTCAACTATGGTCTTACTCATCTGAATCA
1 GGTCTTATTCATTCTCGATTAGATGCCATAATGTCTTTCAACTATGGTCTTACTCATCTGAAT-A
* * * * *
28599281 TGATGCTATAGTGTC-TTCAGCTATGGTCTTATTGTCTGAATAATGATGCCATAGCGGCTTTCAG
65 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTATCTGAATAATGATGCCATAGCGCCTTTCAA
28599345 CTAG
130 CTAG
* * * * * * * *
28599349 GGTCTTACTC-GTCT-GAATAATGATGCCATAACGTCTTTCAGCTATGATCTTACTCGTTTGAAT
1 GGTCTTATTCATTCTCG-ATTA-GATGCCATAATGTCTTTCAACTATGGTCTTACTCATCTGAAT
* * *
28599412 AATGATCCCATAGCGTCTTTCAACTATGGTCTTACTCATCTGAATAATGATGC
64 -ATGATGCCATAGTGTCTTTCAACTATGGTCTTA-TTATCTGAATAATGATGC
28599465 GTCTTTCAGC
Statistics
Matches: 206, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
131 1 0.00
132 8 0.04
133 80 0.39
134 18 0.09
135 35 0.17
136 18 0.09
137 45 0.22
138 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (133 bp):
GGTCTTATTCATTCTCGATTAGATGCCATAATGTCTTTCAACTATGGTCTTACTCATCTGAATAT
GATGCCATAGTGTCTTTCAACTATGGTCTTATTATCTGAATAATGATGCCATAGCGCCTTTCAAC
TAG
Found at i:28599507 original size:84 final size:84
Alignment explanation
Indices: 28599248--28599531 Score: 354
Period size: 84 Copynumber: 3.3 Consensus size: 84
28599238 ATGCGATAAT
* * *
28599248 GTCTTTCAACTATGGTCTTACTCATCTGAATCATGATGCTATAGTGTCTTCAGCTATGGTCTTA-
1 GTCTTTCAACTATGGTCTTACTCATCTGAATAATGATGC----GTCT-TTCAGCTATGATCTTAC
*
28599312 TTGTCTGAATAATGATGCCATAGC
61 TCGTCTGAATAATGATGCCATAGC
* * * *
28599336 GGCTTTCAGCTAGGGTCTTACTCGTCTGAATAATGATGCCATAACGTCTTTCAGCTATGATCTTA
1 GTCTTTCAACTATGGTCTTACTCATCTGAATAATGATG------CGTCTTTCAGCTATGATCTTA
* *
28599401 CTCGTTTGAATAATGATCCCATAGC
60 CTCGTCTGAATAATGATGCCATAGC
28599426 GTCTTTCAACTATGGTCTTACTCATCTGAATAATGATGCGTCTTTCAGCTATGATCTTACTCGTC
1 GTCTTTCAACTATGGTCTTACTCATCTGAATAATGATGCGTCTTTCAGCTATGATCTTACTCGTC
28599491 TGAATAATGATGCCATAGC
66 TGAATAATGATGCCATAGC
* *
28599510 GTCTTTCAGCTATGGTCGTACT
1 GTCTTTCAACTATGGTCTTACT
28599532 GTCTTGATCT
Statistics
Matches: 171, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
84 64 0.37
88 33 0.19
89 15 0.09
90 58 0.34
94 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (84 bp):
GTCTTTCAACTATGGTCTTACTCATCTGAATAATGATGCGTCTTTCAGCTATGATCTTACTCGTC
TGAATAATGATGCCATAGC
Found at i:28599507 original size:129 final size:131
Alignment explanation
Indices: 28599237--28599523 Score: 357
Period size: 129 Copynumber: 2.2 Consensus size: 131
28599227 TTTTCGATTA
* * * * * * * * *
28599237 GATGCGATAATGTCTTTCAACTATGGTCTTACTCATCTGAATCATGATGCTATAGTGTCTTCAGC
1 GATGCCATAACGTCTTTCAGCTATGATCTTACTCATCTGAATAATGATCCCATAGCGTCTTCAAC
** *
28599302 TATGGTCTTATTGTCTGAATAATGATGCCATAGCGGCTTTCAGCTAGGGTCTTACTCGTCTGAAT
66 TATGGTCTTATCATCTGAATAA-GATG-CATAGCGGCTTTCAGCTAGGATCTTACTCGTCTGAAT
28599367 AAT
129 AAT
* *
28599370 GATGCCATAACGTCTTTCAGCTATGATCTTACTCGTTTGAATAATGATCCCATAGCGTCTTTCAA
1 GATGCCATAACGTCTTTCAGCTATGATCTTACTCATCTGAATAATGATCCCATAGCGTC-TTCAA
* *
28599435 CTATGGTCTTACTCATCTGAAT-A-ATG-AT-GCGTCTTTCAGCTATGATCTTACTCGTCTGAAT
65 CTATGGTCTTA-TCATCTGAATAAGATGCATAGCGGCTTTCAGCTAGGATCTTACTCGTCTGAAT
28599496 AAT
129 AAT
*
28599499 GATGCCATAGCGTCTTTCAGCTATG
1 GATGCCATAACGTCTTTCAGCTATG
28599524 GTCGTACTGT
Statistics
Matches: 135, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
129 57 0.42
130 2 0.01
132 3 0.02
133 49 0.36
134 16 0.12
135 8 0.06
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (131 bp):
GATGCCATAACGTCTTTCAGCTATGATCTTACTCATCTGAATAATGATCCCATAGCGTCTTCAAC
TATGGTCTTATCATCTGAATAAGATGCATAGCGGCTTTCAGCTAGGATCTTACTCGTCTGAATAA
T
Found at i:28602953 original size:15 final size:16
Alignment explanation
Indices: 28602918--28602955 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
28602908 ATAGAAAATA
*
28602918 AAGAAATCAACAACAG
1 AAGAAAACAACAACAG
28602934 AAGAAAACAA-AACAG
1 AAGAAAACAACAACAG
*
28602949 CAGAAAA
1 AAGAAAA
28602956 GGAACCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.68, C:0.16, G:0.13, T:0.03
Consensus pattern (16 bp):
AAGAAAACAACAACAG
Found at i:28606149 original size:31 final size:33
Alignment explanation
Indices: 28606114--28606192 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 33
28606104 TGCATGAACC
*
28606114 TATAATATATATACATGGGATTT-AT-TT-TATA
1 TATAATATATATA-ATGGAATTTGATGTTATATA
*
28606145 TATAATATATATTAATGGAATTTGGTGTTATATA
1 TATAATATATA-TAATGGAATTTGATGTTATATA
28606179 TATAATATAATATA
1 TATAATAT-ATATA
28606193 TATATGGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 19 0.46
32 3 0.07
33 2 0.05
34 14 0.34
35 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (33 bp):
TATAATATATATAATGGAATTTGATGTTATATA
Found at i:28606206 original size:32 final size:30
Alignment explanation
Indices: 28606170--28606278 Score: 75
Period size: 32 Copynumber: 3.6 Consensus size: 30
28606160 TGGAATTTGG
28606170 TGTTATATATATAATATAATATATATATGGGT
1 TGTTAT-TATATAATATAATATAT-TATGGGT
* * * *
28606202 TGTTA-TACATAAATTATATTATATGCATGAG-
1 TGTTATTATAT-AA-TATAATATAT-TATGGGT
*
28606233 TCTTATTATATAATAT-ATA-ATTATGGGT
1 TGTTATTATATAATATAATATATTATGGGT
28606261 ATGGTT-TTATATAATATA
1 -T-GTTATTATATAATATA
28606279 TAAATTTACA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
27 4 0.07
28 2 0.03
29 14 0.24
30 9 0.15
31 8 0.14
32 22 0.37
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.47
Consensus pattern (30 bp):
TGTTATTATATAATATAATATATTATGGGT
Found at i:28628102 original size:13 final size:13
Alignment explanation
Indices: 28628084--28628120 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
28628074 GGGCTCGGCA
28628084 GGGACACGCCCGT
1 GGGACACGCCCGT
28628097 GGGACACGCCCGT
1 GGGACACGCCCGT
*
28628110 GGCACACGCCC
1 GGGACACGCCC
28628121 ATGTTCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.43, G:0.35, T:0.05
Consensus pattern (13 bp):
GGGACACGCCCGT
Found at i:28629502 original size:10 final size:10
Alignment explanation
Indices: 28629487--28629521 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
28629477 TTAGCTTTTT
28629487 TCTTTATTTA
1 TCTTTATTTA
28629497 TCTTTATTTA
1 TCTTTATTTA
*
28629507 TCCTTATTTA
1 TCTTTATTTA
28629517 TCTTT
1 TCTTT
28629522 TGGAATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTTATTTA
Found at i:28631656 original size:28 final size:28
Alignment explanation
Indices: 28631590--28631742 Score: 207
Period size: 29 Copynumber: 5.4 Consensus size: 28
28631580 CATGAGATTG
* * **
28631590 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
28631619 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
28631647 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
28631676 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
28631705 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
28631733 ACACTAAGTG
1 GCACTAAGTG
28631743 CGCGGACTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
28 41 0.36
29 73 0.64
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:28631679 original size:57 final size:58
Alignment explanation
Indices: 28631590--28631742 Score: 213
Period size: 57 Copynumber: 2.7 Consensus size: 58
28631580 CATGAGATTG
* * * *
28631590 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
28631647 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
28631705 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTG
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTG
28631743 CGCGGACTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 55 0.63
58 32 0.37
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:28639680 original size:28 final size:28
Alignment explanation
Indices: 28639614--28639766 Score: 207
Period size: 29 Copynumber: 5.4 Consensus size: 28
28639604 CATGAGATTG
* * **
28639614 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
28639643 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
28639671 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
28639700 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
28639729 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
28639757 ACACTAAGTG
1 GCACTAAGTG
28639767 CGCGGACTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
28 41 0.36
29 73 0.64
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:28639703 original size:57 final size:58
Alignment explanation
Indices: 28639614--28639766 Score: 213
Period size: 57 Copynumber: 2.7 Consensus size: 58
28639604 CATGAGATTG
* * * *
28639614 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
28639671 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
28639729 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTG
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTG
28639767 CGCGGACTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 55 0.63
58 32 0.37
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:28644603 original size:31 final size:30
Alignment explanation
Indices: 28644567--28644625 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
28644557 TAGGTCATTA
28644567 AACTATT-TGAAAGTTTTCATTTAAGTCACTT
1 AACTATTAT-AAA-TTTTCATTTAAGTCACTT
*
28644598 AACTATTCATAAATTTTTATTTAAGTCA
1 AACTATT-ATAAATTTTCATTTAAGTCA
28644626 TTAGATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 21 0.84
32 3 0.12
33 1 0.04
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (30 bp):
AACTATTATAAATTTTCATTTAAGTCACTT
Found at i:28653657 original size:12 final size:12
Alignment explanation
Indices: 28653638--28653675 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
28653628 TTTGCATACA
28653638 AAAC-AGTTTCC
1 AAACAAGTTTCC
28653649 AAACAAGTTTCC
1 AAACAAGTTTCC
28653661 AAACAAGTTTCC
1 AAACAAGTTTCC
28653673 AAA
1 AAA
28653676 TGGCACCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
AAACAAGTTTCC
Found at i:28658989 original size:20 final size:21
Alignment explanation
Indices: 28658964--28659002 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
28658954 TCCTTAAAAG
28658964 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
28658984 AGGGCAACACGCCCATGTG
1 AGGGCAACACGCCCATGTG
28659003 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:28660173 original size:47 final size:47
Alignment explanation
Indices: 28660097--28660316 Score: 202
Period size: 47 Copynumber: 4.7 Consensus size: 47
28660087 TGGGTAAGGT
28660097 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGAT-CCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * *
28660144 GTCGATACCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGAT-CCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCGAA
* * * *
28660192 GCCGATGCATTTCCCAGACAT-GTCTTACACTGGCTTA-AGTCTCGAG
1 GCCGATCCATGTCCCAGACATGGTCTTACACTGGCTCATA-TCTCGAA
* * * *
28660238 GCCGATGCATGTCCCA-AGCAT-GTCTTACACTAGCTCTTGTCTC-AA
1 GCCGATCCATGTCCCAGA-CATGGTCTTACACTGGCTCATATCTCGAA
* *
28660283 TGCTGATGCCATGTCTCAGACATGGTCTTACACT
1 -GCCGAT-CCATGTCCCAGACATGGTCTTACACT
28660317 AGCTTTCATA
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 60 0.42
47 62 0.44
48 17 0.12
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
GCCGATCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:28660303 original size:93 final size:95
Alignment explanation
Indices: 28660097--28660321 Score: 248
Period size: 93 Copynumber: 2.4 Consensus size: 95
28660087 TGGGTAAGGT
* *
28660097 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATACCATGTCCCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCAAGCCGATACCATGTCCCAA
*
28660162 ACATGGTCTTACACTGACTATCATCTCGTA
66 ACATGGTCTTACACTGACTATCATCTCATA
* * *
28660192 GCCGATG-CATTTCCCAGACAT-GTCTTACACTGGCTTA-AGTCTCGAGGCCGAT-GCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATA-TCTC-AAGCCGATACCATGTCCC
* * **
28660253 AAGCAT-GTCTTACACT-AGCTCTTGTCTCA-A
64 AAACATGGTCTTACACTGA-CTATCATCTCATA
* * *
28660283 TGCTGATGCCATGTCTCAGACATGGTCTTACACTAGCTT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT
28660322 TCATAATATG
Statistics
Matches: 110, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
91 2 0.02
92 24 0.22
93 44 0.40
94 33 0.30
95 7 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCAAGCCGATACCATGTCCCAA
ACATGGTCTTACACTGACTATCATCTCATA
Found at i:28660343 original size:47 final size:44
Alignment explanation
Indices: 28660195--28660366 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 44
28660185 TCTCGTAGCC
* * ** * *
28660195 GATGCATTTCCCAGACATGTCTTACACTGGCTTAAGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT--GTCTAAATGCT
*
28660241 GATGCATGTCCCA-AGCATGTCTTACACTAGCTCTTGTCTCAATGCT
1 GATGCATGTCCCAGA-CATGTCTTACACTAG--CTTGTCTAAATGCT
*
28660287 GATGCCATGTCTCAGACATGGTCTTACACTAGCTT-TCATAATATGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTGTC-TAA-ATGCT
28660334 GGATGCATGTCCCAGACATGTCTTACACTAGCT
1 -GATGCATGTCCCAGACATGTCTTACACTAGCT
28660367 CACAAACAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
45 3 0.03
46 57 0.52
47 29 0.27
48 20 0.18
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTCTAAATGCT
Found at i:28660357 original size:140 final size:141
Alignment explanation
Indices: 28660097--28660362 Score: 330
Period size: 140 Copynumber: 1.9 Consensus size: 141
28660087 TGGGTAAGGT
*
28660097 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATACCATGTCCCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATACCATGTCCCAA
* * *
28660162 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATTTCCCAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
28660227 TAAGTCTCGAG
131 TAAGTCTCGAG
* * * *
28660238 GCCGATG-CATGTCCCA-AGCAT-GTCTTACACTAGCTCTTGTCTCAA-TGCTGATGCCATGTCT
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCATATCTCAAGT-C-GATACCATGTCC
* * *
28660299 CAGACATGGTCTTACACT-AGCTTTCATA--ATATGCTGGATGCATGTCCCAGACATGTCTTACA
63 CAAACATGGTCTTACACTGA-CTATCATATCATA-GC-CGATGCATGTCCCAGACATGTCTTACA
28660361 CT
125 CT
28660363 AGCTCACAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
138 3 0.03
139 26 0.24
140 72 0.67
141 7 0.06
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATACCATGTCCCAA
ACATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
TAAGTCTCGAG
Found at i:28661734 original size:23 final size:23
Alignment explanation
Indices: 28661708--28661775 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
28661698 TTCATTTGAC
*
28661708 TTAATTGAACATGTTTACGAATA
1 TTAATTGAACATGTTCACGAATA
*** *
28661731 TTAAACAAACATGTTCATGAATA
1 TTAATTGAACATGTTCACGAATA
* *
28661754 TATAATTGAATATGTTCGCGAA
1 T-TAATTGAACATGTTCACGAA
28661776 CAATGTTAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
TTAATTGAACATGTTCACGAATA
Found at i:28662628 original size:8 final size:8
Alignment explanation
Indices: 28662615--28662640 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
28662605 CTTGAAGGGG
28662615 CCTTGTAT
1 CCTTGTAT
28662623 CCTTGTAT
1 CCTTGTAT
28662631 CCTTGTAT
1 CCTTGTAT
28662639 CC
1 CC
28662641 CTGTTTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.31, G:0.12, T:0.46
Consensus pattern (8 bp):
CCTTGTAT
Found at i:28670212 original size:68 final size:68
Alignment explanation
Indices: 28670103--28670238 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 68
28670093 AAGCATAAAT
* * **
28670103 AAGAACTCATAATGTCCATAATGGGTCTTAAAGAGGGTCTTAGGCATATCGGATTCTTTCACTTT
1 AAGAACTCATAATGTCCATAATGGGTATTAAAGAGAGTCTTAGGCATATCAAATTCTTTCACTTT
28670168 CAA
66 CAA
*
28670171 AAGAACTCATAATGTCCGTAATGGGTATTAAAG-GCAGTCTTAGGCATATCAAATTCTTTCACTT
1 AAGAACTCATAATGTCCATAATGGGTATTAAAGAG-AGTCTTAGGCATATCAAATTCTTTCACTT
28670235 TCAA
65 TCAA
28670239 CTAATGCTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (68 bp):
AAGAACTCATAATGTCCATAATGGGTATTAAAGAGAGTCTTAGGCATATCAAATTCTTTCACTTT
CAA
Found at i:28672180 original size:25 final size:28
Alignment explanation
Indices: 28672128--28672181 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
28672118 TTATTGCTAT
* *
28672128 TATGTGTTGAATGATCGATTCTGCATAA
1 TATGTGTTGAATGATCGATTATGAATAA
28672156 TATG-GTTGAAT-AT-GATTATGAATAA
1 TATGTGTTGAATGATCGATTATGAATAA
28672181 T
1 T
28672182 GCGTGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 7 0.29
28 4 0.17
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (28 bp):
TATGTGTTGAATGATCGATTATGAATAA
Found at i:28672329 original size:48 final size:48
Alignment explanation
Indices: 28672267--28672586 Score: 226
Period size: 48 Copynumber: 6.7 Consensus size: 48
28672257 TGATATGTAT
* * * *
28672267 GCTAGTGAAAGACCATGTCTAGTACATGGCATTAGCCACGATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGA
* *
28672315 GCTAGTGTAAGACCATGT-TTGGAGCATGGCA-TCGCCAATG-TAATGAGA
1 GCTAGTGTAAGACCATGTCTGGGA-CATGGCATTAGCC-ATGAT-ATGAGA
* * * * *
28672363 GCCAGTGTAAGACCATGTCTGGGATATGGCATCAG-CATTGATGTGTA-C
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCA-TGATATG-AGA
* * * * *
28672411 GCTAATGTAAAACCATGTCTAGGACATGGCATTGGCCA-CATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGA-TATGAGA
* * * * * * *
28672459 GCCAGTGTAAGACCATGTCTGGAACATGACATCAG-CATTAAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCA-TGATATGAGA
** *
28672507 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGACATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCAT-GATATG-AGA
* * * *
28672555 ACCAGTGTAAGACCATGTTTGGAACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
28672587 CGGTAAATCG
Statistics
Matches: 212, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
47 14 0.07
48 186 0.88
49 12 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGA
Found at i:28672439 original size:96 final size:94
Alignment explanation
Indices: 28672311--28672587 Score: 294
Period size: 96 Copynumber: 2.9 Consensus size: 94
28672301 GCCACGATAT
*
28672311 GAGAGCTAGTGTAAGACCATGT-TTGGAGCATGGCATCGCCA-ATGTAATGAGAGCCAGTGTAAG
1 GAGAGCTAGTGTAAGACCATGTCTAGGA-CATGGCATCGCCACAT-T-ATGAGAGCCAGTGTAAG
* * * *
28672374 ACCATGTCTGGGATATGGCATCAGCATT-GAT
63 ACCATGTCTGGAACATGACATCAGCATTAGAC
* * * *
28672405 GTGTACGCTAATGTAAAACCATGTCTAGGACATGGCATTGGCCACATTATGAGAGCCAGTGTAAG
1 GAG-A-GCTAGTGTAAGACCATGTCTAGGACATGGCA-TCGCCACATTATGAGAGCCAGTGTAAG
28672470 ACCATGTCTGGAACATGACATCAGCATTAAGAC
63 ACCATGTCTGGAACATGACATCAGCATT-AGAC
* * * *
28672503 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTA-AACCAGTGTAAG
1 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC-GCCAC-ATTATG-AGAGCCAGTGTAAG
* *
28672566 ACCATGTTTGGAACATGGCATC
63 ACCATGTCTGGAACATGACATC
28672588 GGTAAATCGC
Statistics
Matches: 154, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
94 2 0.01
95 2 0.01
96 131 0.85
97 13 0.08
98 6 0.04
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGCCACATTATGAGAGCCAGTGTAAGACC
ATGTCTGGAACATGACATCAGCATTAGAC
Found at i:28672538 original size:144 final size:144
Alignment explanation
Indices: 28672278--28672539 Score: 379
Period size: 144 Copynumber: 1.8 Consensus size: 144
28672268 CTAGTGAAAG
* * * *
28672278 ACCATGTCTAGTACATGGCATTAGCCACGATATGAGAGCTAGTGTAAGACCATGTTTGGAGCATG
1 ACCATGTCTAGGACATGGCATTAGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATG
* * *
28672343 GCATCGCCAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCATTGATGTG
66 ACATCGCCAATGTAACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATGTG
28672408 TACGCTAATGTAAA
131 TACGCTAATGTAAA
*
28672422 ACCATGTCTAGGACATGGCATTGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTCTGGAACAT
1 ACCATGTCTAGGACATGGCATTAGCCACGA-TATGAGAGCCAGTGTAAGACCATGTCTGGAACAT
*
28672486 GACATCAG-C-AT-TAAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
65 GACATC-GCCAATGT-A-ACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
28672540 GGCCTCGACA
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
142 1 0.01
143 4 0.04
144 99 0.94
145 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (144 bp):
ACCATGTCTAGGACATGGCATTAGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATG
ACATCGCCAATGTAACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATGTG
TACGCTAATGTAAA
Found at i:28672564 original size:144 final size:144
Alignment explanation
Indices: 28672270--28672586 Score: 358
Period size: 144 Copynumber: 2.2 Consensus size: 144
28672260 TATGTATGCT
* * *
28672270 AGTG-AAAGACCATGTCTAGTACATGGCATTAGCCACGATATGAGAGCTAGTGTAAGACCATGTT
1 AGTGTAAA-ACCATGTCTAGGACATGGCATTAGCCACGATATGAGAGCCAGTGTAAGACCATGTC
* * * *
28672334 TGGAGCATGGCATCGCCAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGC
65 TGGAACATGACATCGCCAATGTAACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
* ** ** *
28672399 ATTGATGTGTACGCT
130 ATCGACATGTAAACC
* *
28672414 AATGTAAAACCATGTCTAGGACATGGCATTGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAAACCATGTCTAGGACATGGCATTAGCCACGA-TATGAGAGCCAGTGTAAGACCATGTC
*
28672478 TGGAACATGACATCAG-C-AT-TAAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
65 TGGAACATGACATC-GCCAATGT-A-ACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* *
28672540 GGCCTCGACATGTAAACC
127 AGCATCGACATGTAAACC
* *
28672558 AGTGTAAGACCATGT-TTGGAACATGGCAT
1 AGTGTAAAACCATGTCTAGG-ACATGGCAT
28672587 CGGTAAATCG
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
142 1 0.01
143 7 0.05
144 134 0.92
145 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (144 bp):
AGTGTAAAACCATGTCTAGGACATGGCATTAGCCACGATATGAGAGCCAGTGTAAGACCATGTCT
GGAACATGACATCGCCAATGTAACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
TCGACATGTAAACC
Found at i:28690070 original size:20 final size:19
Alignment explanation
Indices: 28690045--28690082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
28690035 TTCTTTTTTT
*
28690045 ATAATATAAGGATTGAATTA
1 ATAATAAAAGGATT-AATTA
28690065 ATAATAAAAGGATTAATT
1 ATAATAAAAGGATTAATT
28690083 TGATTTGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (19 bp):
ATAATAAAAGGATTAATTA
Found at i:28705574 original size:126 final size:126
Alignment explanation
Indices: 28705349--28705600 Score: 468
Period size: 126 Copynumber: 2.0 Consensus size: 126
28705339 AGTAATTCAA
* * *
28705349 CTGCATACTATTTATAAGTACACTATAATTCAACTTTTCATCTCTTCCGAAATTGAATAGGACAA
1 CTGCATACTATTTAAAAGTACACTATAATTCAACTTTTCATCTCTTCCAAAATTGAATAAGACAA
28705414 GTTGCTAATCAAATATATGCATCGCATTTTTATGTTGCTTAATTCTCATTCTTCATTAGAT
66 GTTGCTAATCAAATATATGCATCGCATTTTTATGTTGCTTAATTCTCATTCTTCATTAGAT
28705475 CTGCATACTATTTAAAAGTACACTATAATTCAACTTTTCATCTCTTCCAAAATTGAATAAGACAA
1 CTGCATACTATTTAAAAGTACACTATAATTCAACTTTTCATCTCTTCCAAAATTGAATAAGACAA
*
28705540 GTTGCTAATCAAATATATGCATCGCATTTTTATGTTTCTTAATTCTCATTCTTCATTAGAT
66 GTTGCTAATCAAATATATGCATCGCATTTTTATGTTGCTTAATTCTCATTCTTCATTAGAT
28705601 TTTTAGATGA
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (126 bp):
CTGCATACTATTTAAAAGTACACTATAATTCAACTTTTCATCTCTTCCAAAATTGAATAAGACAA
GTTGCTAATCAAATATATGCATCGCATTTTTATGTTGCTTAATTCTCATTCTTCATTAGAT
Found at i:28716041 original size:21 final size:22
Alignment explanation
Indices: 28716015--28716057 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
28716005 AAAATGCAGT
28716015 AAAT-AAAATATTTTAATATAA
1 AAATAAAAATATTTTAATATAA
*
28716036 AAATAAAAATCTTTTAATATAA
1 AAATAAAAATATTTTAATATAA
28716058 TTTAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATAAAAATATTTTAATATAA
Found at i:28716153 original size:25 final size:24
Alignment explanation
Indices: 28716108--28716156 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
28716098 TATATTATTT
** *
28716108 TTATTAAATTTTTTAATAATAATC
1 TTATTAAATTTAATAACAATAATC
28716132 TTATTAAAATTTAATAACAATAATC
1 TTATT-AAATTTAATAACAATAATC
28716157 ATTTATCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTAAATTTAATAACAATAATC
Found at i:28718463 original size:44 final size:44
Alignment explanation
Indices: 28718402--28718489 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
28718392 GCAAGTATAT
28718402 TTTGTAAAAATATCTCAAACCCCTTATAAACAATTTTGGCTTTA
1 TTTGTAAAAATATCTCAAACCCCTTATAAACAATTTTGGCTTTA
28718446 TTTGTAAAAATATCTCAAACCCCTTATAAACAATTTTGGCTTTA
1 TTTGTAAAAATATCTCAAACCCCTTATAAACAATTTTGGCTTTA
28718490 CTCTGTGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (44 bp):
TTTGTAAAAATATCTCAAACCCCTTATAAACAATTTTGGCTTTA
Found at i:28731389 original size:40 final size:40
Alignment explanation
Indices: 28731315--28731496 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
28731305 AACCCAAGTA
* * *
28731315 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
28731354 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
28731394 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
28731434 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
28731474 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
28731497 CATTCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 11 0.08
40 119 0.89
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:28738919 original size:40 final size:40
Alignment explanation
Indices: 28738875--28739026 Score: 268
Period size: 40 Copynumber: 3.8 Consensus size: 40
28738865 ATAGCAACTC
* *
28738875 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAATA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
28738915 GCACAAATGCCTTCGGGACTTGGCCCAGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
28738955 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
28738995 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
28739027 CATTTGAATA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:28747518 original size:17 final size:17
Alignment explanation
Indices: 28747487--28747542 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
28747477 GCACACTCGT
*
28747487 TAAA-GCCCGATAAATG
1 TAAATGCCCGACAAATG
*
28747503 TAAATGTCCGACAAAT-
1 TAAATGCCCGACAAATG
28747519 TATAATGCCCGAC-AATG
1 TA-AATGCCCGACAAATG
28747536 ATAAATG
1 -TAAATG
28747543 ATAGAAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 9 0.27
17 22 0.67
18 2 0.06
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (17 bp):
TAAATGCCCGACAAATG
Found at i:28748059 original size:57 final size:59
Alignment explanation
Indices: 28747971--28748110 Score: 144
Period size: 59 Copynumber: 2.4 Consensus size: 59
28747961 TATGGATTGA
* * * * *
28747971 ATTTAGCCCGGACCGGTAATCCAGATCAAGCTCT-TT-AGAACATATGTTATAAAATG-G
1 ATTTAGCCTGGACTGGTAATCCTGATCAAGCTCTATTGAGAACATATATT-GAAAATGAG
* * * *
28748028 ATTTAGCCTGGACTGGTAATCCTGA-CTAAGCTCTATTGAGTATATATATTGGAGATGAG
1 ATTTAGCCTGGACTGGTAATCCTGATC-AAGCTCTATTGAGAACATATATTGAAAATGAG
*
28748087 ATTTAGCCTGGATTGGTAATCCTG
1 ATTTAGCCTGGACTGGTAATCCTG
28748111 TCTATATATG
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 29 0.42
58 6 0.09
59 33 0.48
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTAATCCTGATCAAGCTCTATTGAGAACATATATTGAAAATGAG
Found at i:28753022 original size:21 final size:22
Alignment explanation
Indices: 28752997--28753041 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
28752987 GATTATGACT
28752997 AATT-AATTTTAAAAAAATAAA
1 AATTAAATTTTAAAAAAATAAA
* *
28753018 AATTAAATTTTTAAAAAATCAA
1 AATTAAATTTTAAAAAAATAAA
28753040 AA
1 AA
28753042 GGATGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTAAATTTTAAAAAAATAAA
Done.