Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1031
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: 31822
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.23
Found at i:973 original size:64 final size:65
Alignment explanation
Indices: 872--994 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 65
862 CACCGATAGC
*
872 ACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCCGGCCCTCC-CCCCTCTCTA
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCTCCCCTCTCTA
* * * *
936 ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCTCCCC
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCTCCCC
995 AACCAAACGT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
64 49 0.92
65 4 0.08
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.14
Consensus pattern (65 bp):
ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCTCCCCTCTCTA
Found at i:1644 original size:759 final size:751
Alignment explanation
Indices: 201--1827 Score: 2834
Period size: 759 Copynumber: 2.2 Consensus size: 751
191 GCCAACGCTA
* * * * * * *
201 TGCGCAACGAGTCCCTCCCCCGGCCATCCGTCCCTCCCCGC-TCCGAATGTGTTCTTCCTTAGCA
1 TGCGCAACGAGTCCCT-CCCCAG-CATCCGTCCCTCCCCCCAACCAAACGTGTTCTCCCTTAGCG
* ** **
265 TTGCGCCGGTCGGTTGGGTACCCCGAGCAACTATGCGCACACCGGTGATCC-CACGGTGTGCGCC
64 TTGCGTCGGTCGGTTGGGTACCCCGA-CAACGGTGCGCAC-CCGGTGCCCCGCACGGTGTGCGCC
* * * *
329 GCGATCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCCGGGTGCTTGCGCG
127 CCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCAGGGTGCATGCGCG
394 GCCGCCCCGCACCACCAGGGTGGGCGAGGCGCGCACCGTTCTCCCGCCGCAGCCGAGGGTGGGCG
192 GCCGCCCCGCACCACCAGGGTGGGCGAGGCGCGCACCGTTCTCCCGCCGCAGCCGAGGGTGGGCG
459 AGGCGCGCACCGGTGCTCCGCATGTGTGCGCCCCGGCCGCCCCCACACCAGGGGGCGGGCAGGGC
257 AGGCGCGCACCGGTGCTCCGCATGTGTGCGCCCCGGCCGCCCCCACACCAGGGGGCGGGCAGGGC
524 GCGCACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCCCGAGGGTGGGCGAGGCGCGC
322 GCGCACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCCCGAGGGTGGGCGAGGCGCGC
589 GCCGGCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGGCAGAAAAAACCGACCCTGTT
387 GCCGGCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGGCAGAAAAAACCGACCCTGTT
*
654 TCGAACATCGGTCCTGTCCGCTTGTAACGGATATGAAATGCCCCTTAAGCTCTATAGGGGGTGTG
452 TCGAACATCGGTCCTGTCCGCTGGTAACGGATATGAAATGCCCCTTAAGCTCTATAGGGGGTGTG
719 ATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCGTCGCG
517 ATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCGTCGCG
*
784 TGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTTAGGTTCTCCGGCGACGGTGCCGAGG
582 TGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGAGG
* *
849 ACCGCGAATTCTGCACCGATAGCACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACC
647 ACCGCGAATTCGGCACCGATAGCACATGCAGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACC
*
914 ATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGCG
712 ATCCGGCCCT-CCCCCTCTCTAACATACGGAGGGCCAAGCG
955 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCTCCCCAACCAAACGTGTTCATCCCTTAGCG
1 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCC-CCCCAACCAAACGTGTTC-TCCCTTAGCG
1020 TTGCGTCGGTCGGTTGGGTACCCCGACAAACGGTGCGCACCCGGTGCCCCGCGA-GGTGTGCGCC
64 TTGCGTCGGTCGGTTGGGTACCCCGAC-AACGGTGCGCACCCGGTGCCCCGC-ACGGTGTGCGCC
1084 CCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCAGGGTGCATGCCGC
127 CCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCAGGGTGCATG-CGC
*
1149 GGCCGCCCCGCACCCCCCAGGGTGGGCGAGGCGCGCACCGTTCTCCCGCCCGCAGCCGAGGGTGG
191 GGCCGCCCCGCA-CCACCAGGGTGGGCGAGGCGCGCACCGTTCTCCCG-CCGCAGCCGAGGGTGG
1214 GCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGGCCGCCCCCACACCAGGGGGCGGGCA
254 GCGAGGCGCGCACCGGTGCTCCGCAT-GTGTGCGCCCCGGCCGCCCCCACACCAGGGGGCGGGCA
1279 GGGCGCGCACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCCCGAGGGTGGGCGAGGC
318 GGGCGCGCACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCCCGAGGGTGGGCGAGGC
*
1344 GCGCGCCGGCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGGCAG-AAAAATCGACCC
383 GCGCGCCGGCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGGCAGAAAAAACCGACCC
1408 TGTTTTCGAACATC-GTCCTGTCCGCTGGTAACGGATATGAAATGCCCCCTTAAGCTCTATAGGG
448 TG-TTTCGAACATCGGTCCTGTCCGCTGGTAACGGATATGAAATG-CCCCTTAAGCTCTATAGGG
1472 GGTGTGATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACC
511 GGTGTGATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCA-C
*
1537 CGTCGCGTGCCA-CCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGATGGT
575 CGTCGCGTGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGT
1601 GCCGAGGACCGCGAATTCGGCACCGATAGCACATGCAGAGGCCCAAGCGTGGGCAACGAGTCCCT
640 GCCGAGGACCGCGAATTCGGCACCGATAGCACATGCAGAGGCCCAAGCGTGGGCAACGAGTCCCT
1666 CCCAACCATCCGGCCCTCCCCCTCTCTAACATACGGAGGGCCAAGCG
705 CCCAACCATCCGGCCCTCCCCCTCTCTAACATACGGAGGGCCAAGCG
1713 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAGCG
1 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCT-CCCCCCAACCAAACGTGTTC-TCCCTTAGCG
1778 TTGCGTCGGTCGGTTGGGTACCCCGACAACGGTGCGCACCCGGTGCCCCG
64 TTGCGTCGGTCGGTTGGGTACCCCGACAACGGTGCGCACCCGGTGCCCCG
1828 ACCGCCCCCA
Statistics
Matches: 834, Mismatches: 25, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
752 13 0.02
753 8 0.01
754 35 0.04
755 111 0.13
756 16 0.02
757 57 0.07
758 201 0.24
759 380 0.46
760 13 0.02
ACGTcount: A:0.14, C:0.38, G:0.33, T:0.14
Consensus pattern (751 bp):
TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCAACCAAACGTGTTCTCCCTTAGCGTT
GCGTCGGTCGGTTGGGTACCCCGACAACGGTGCGCACCCGGTGCCCCGCACGGTGTGCGCCCCGA
CCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCAGGGTGCATGCGCGGCCG
CCCCGCACCACCAGGGTGGGCGAGGCGCGCACCGTTCTCCCGCCGCAGCCGAGGGTGGGCGAGGC
GCGCACCGGTGCTCCGCATGTGTGCGCCCCGGCCGCCCCCACACCAGGGGGCGGGCAGGGCGCGC
ACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCCCGAGGGTGGGCGAGGCGCGCGCCG
GCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGGCAGAAAAAACCGACCCTGTTTCGA
ACATCGGTCCTGTCCGCTGGTAACGGATATGAAATGCCCCTTAAGCTCTATAGGGGGTGTGATAC
TTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCGTCGCGTGCC
ACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGAGGACCG
CGAATTCGGCACCGATAGCACATGCAGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCC
GGCCCTCCCCCTCTCTAACATACGGAGGGCCAAGCG
Found at i:1982 original size:62 final size:62
Alignment explanation
Indices: 1822--1991 Score: 177
Period size: 60 Copynumber: 2.7 Consensus size: 62
1812 CGCACCCGGT
* * *
1822 GCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCCCCGTGCTCCCGCCCGGGTCCGT
1 GCCCCGACCGCCCCCA-CCCAGGGGGCGGGAAGGGCGCGCACCGTGCGCCCGCCCGGGTCCGC
* * * * * * **
1885 GCCGCGGCCGCCCGCA-CCAGAGGGCGGG-CGAGGCGCGCACCG-GCGCCC-CGCGAGGTGGGC
1 GCCCCGACCGCCCCCACCCAGGGGGCGGGAAG-GGCGCGCACCGTGCGCCCGCCCG-GGTCCGC
1945 GCCCCGACCGCCCCCACCACAGGGGGCGGGAAGGGCGCGCACCGTGC
1 GCCCCGACCGCCCCCACC-CAGGGGGCGGGAAGGGCGCGCACCGTGC
1992 TCCTGGCCGC
Statistics
Matches: 85, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
59 3 0.04
60 23 0.27
61 22 0.26
62 21 0.25
63 16 0.19
ACGTcount: A:0.11, C:0.45, G:0.41, T:0.04
Consensus pattern (62 bp):
GCCCCGACCGCCCCCACCCAGGGGGCGGGAAGGGCGCGCACCGTGCGCCCGCCCGGGTCCGC
Found at i:2016 original size:102 final size:101
Alignment explanation
Indices: 1896--2083 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 101
1886 CCGCGGCCGC
*
1896 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
1 CCGCACCAGAGGGCGGGCGAGGCACGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
1961 CCACAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
66 CCAC-GGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
* * * * * **
1998 CCGCACCCGAGGGTGGGCGAGGCACGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGTCGCCCCCA
1 CCGCACCAGAGGGCGGGCGAGGCACGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
2063 CCACGGGGGCGGGAAGGGCGC
66 CCACGGGGGCGGGAAGGGCGC
2084 CCCCGGGCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 17 0.22
102 61 0.78
ACGTcount: A:0.12, C:0.40, G:0.43, T:0.05
Consensus pattern (101 bp):
CCGCACCAGAGGGCGGGCGAGGCACGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
CCACGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
Found at i:3936 original size:403 final size:403
Alignment explanation
Indices: 3091--4197 Score: 1607
Period size: 403 Copynumber: 2.7 Consensus size: 403
3081 AAACCTTGTC
* * ** * **
3091 GCGGTGATGGAGACCCTGCGCGGTCCAGGTGATCCGTGGCAAGGTCCCCGGTCGCCGTATGCTGC
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGG-CCCCGGTCGCTGCGTGC-G-
* * * *
3156 CGATCGCATGGCACGCGTGTGTGGGGTACAAGGGGCGTGGTCGTGCC-GAAGGGTTAA-GCTTC-
63 CGATCGCTTGGCACGCGTGTG-CGGGTA-ACGGGGCGTGGTCGTGCCGGAA-GG-CAAGGC-TCG
* *
3218 CACCTGCGCTGATTCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTGTGGCGTGGGCAGA
123 CACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGA
* *
3283 AGCTGCAGGTG-GGGCTTGGCCTGGCCATGCCCCGT-GAGCAGGGGCAGTCTCGCGACCCTTGCT
188 AGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCC-TCGAGCAGGGGCAGTCTCGCGGCCCTTGCA
* * * * * * *
3346 TCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTG
252 TCGGCAACGGTGGGCTCGTCCTGCCGGTTGCCTGTCGGGGATTGCGATCCAGGCGCCTGGCATGG
* * *
3411 ATCGCGCCCCGACAGAGTGTCCCTCTCGGTTAAGATCCAGGTCGCGCGTGCCTTGCGATCGTGGT
317 ATCGCGCCCCGACA-AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGT
3476 TTTCGGTGGCCGGATGCCCAGCT
381 TTTCGGTGGCCGGATGCCCAGCT
* * * *
3499 GCGGTGACGG-GACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCGTCGGTCTCTGCGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCC-CCGGTCGCTGCGTGCGCG
*
3563 ATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
65 ATCGCTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
* * *
3628 GGTGATGCTGCCAAGTTCCCGAATTCGAGTCGGTAGTCCCGGTTATGGCGTGGGCAGAAGCTGCA
130 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
*
3693 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
195 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCAAC
* *
3758 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGATCCAGGCGCCTGGCATGGTTCGCGCC
260 GGTGGGCTCGTCCTGCCGGTTGCCTGTCGGGGATTGCGATCCAGGCGCCTGGCATGGATCGCGCC
*
3823 CCGGC-AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGG
325 CCGACAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGG
3887 CCGGATGCCCAGCT
390 CCGGATGCCCAGCT
*
3901 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGG-CCCCGGTCGCTGCGTGCGCG
* * * *
3966 ATCGTTTGGCTCGCGTGTGTGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTTGCACCTGC
65 ATCGCTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
* ** *
4031 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGCAGGCAGATGCTGCA
130 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
* *
4096 GGTGAGGGCGTGGCCTGGCCATTGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCAGCGGCAA
195 GGTGAGGGCTTGGCCTGGCCA-TGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCAA
*
4161 CGGTGGGCTCGTCTTGCCGGTTGCCTGTCGGGGATTG
259 CGGTGGGCTCGTCCTGCCGGTTGCCTGTCGGGGATTG
4198 TGCTCGATGT
Statistics
Matches: 634, Mismatches: 56, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
402 83 0.13
403 280 0.44
404 201 0.32
405 19 0.03
406 3 0.00
407 39 0.06
408 9 0.01
ACGTcount: A:0.13, C:0.28, G:0.38, T:0.22
Consensus pattern (403 bp):
GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCGGTCGCTGCGTGCGCGA
TCGCTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGCG
GTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGAAGCTGCAG
GTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCAACG
GTGGGCTCGTCCTGCCGGTTGCCTGTCGGGGATTGCGATCCAGGCGCCTGGCATGGATCGCGCCC
CGACAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGGC
CGGATGCCCAGCT
Found at i:11121 original size:62 final size:60
Alignment explanation
Indices: 10928--11129 Score: 182
Period size: 62 Copynumber: 3.2 Consensus size: 60
10918 CGGCAACTGT
10928 GCGCACCCGGTGCTCC-CACGGTGTGCGCCGCGACCGCCCCC-ACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CC-GTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGG-AGGGC
* *
10990 GCGCACCGTGCTCCTGGC-CGGGTGCGTGCCGCGGCCG-CCCCGCACCCCCCAGGGTGG-GCGA-
1 GCGCACCGTGCTCC--GCACGGGTGC--GCCGCGACCGCCCCCG-A--CCCCAGGG-GGCGGGAG
11051 GGC
58 GGC
* * *
11054 GCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGC
1 GCGCACCGTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGA-GGGC
*
11116 GCGCACCGTTCTCC
1 GCGCACCGTGCTCC
11130 CGCCCGCAGC
Statistics
Matches: 117, Mismatches: 7, Indels: 32
0.75 0.04 0.21
Matches are distributed among these distances:
59 2 0.02
60 18 0.15
61 6 0.05
62 39 0.33
63 17 0.15
64 22 0.19
65 1 0.01
66 10 0.09
67 2 0.02
ACGTcount: A:0.08, C:0.45, G:0.38, T:0.09
Consensus pattern (60 bp):
GCGCACCGTGCTCCGCACGGGTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGAGGGC
Found at i:11218 original size:102 final size:102
Alignment explanation
Indices: 11040--11226 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
11030 CGCACCCCCC
* *
11040 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGG
1 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
11105 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
66 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
*
11142 AGGGTGGGCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCC-ACACCAGGG
1 AGGGTGGGCGAGGCGCGCACC-GTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGG
11206 GGCGGGCA-GGGCGCGCACCGT
65 GGCGGG-ATGGGCGCGCACCGT
11227 GCACCTGGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 48 0.60
103 32 0.40
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.09
Consensus pattern (102 bp):
AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
Found at i:11666 original size:64 final size:64
Alignment explanation
Indices: 11565--11686 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
11555 CACCGATAGC
*
11565 ACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
* * * *
11629 ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCC
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCC
11687 CAACCAAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (64 bp):
ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
Found at i:11934 original size:63 final size:62
Alignment explanation
Indices: 11746--11940 Score: 200
Period size: 63 Copynumber: 3.1 Consensus size: 62
11736 CGACAACGGT
* *
11746 GCGCACCCGGTGCCCCGCGAGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CCGGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
* * * * * * * * * *
11809 GCGCCCCGTGCTCCCGCCCG-GGTCCGTGCCGCGGCCGCCCGCA--CCAGAGGGCGGG-CGAGGC
1 GCGCACCG-GCGCCC-CGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAG-GGC
*
11870 GCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCACCGGCGCCCCGCGAGGTGCGCGCCCCGACCG-CCCCCACCCCAGGGGGCGGGAAGGGC
11933 GCGCACCG
1 GCGCACCG
11941 TGCTCCTGGC
Statistics
Matches: 101, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
59 3 0.03
60 18 0.18
61 26 0.26
62 3 0.03
63 47 0.47
64 4 0.04
ACGTcount: A:0.10, C:0.46, G:0.41, T:0.04
Consensus pattern (62 bp):
GCGCACCGGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
Found at i:11968 original size:103 final size:101
Alignment explanation
Indices: 11847--12035 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
11837 CCGCGGCCGC
11847 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCC
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCG-CCCCC
*
11912 ACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
65 ACCAC-GGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
* * * * * *
11950 CCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGCCGCCCCCA
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
12015 CCACGGGGGCGGGAAGGGCGC
66 CCACGGGGGCGGGAAGGGCGC
12036 CCCCGGGCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 9 0.11
103 53 0.67
ACGTcount: A:0.11, C:0.42, G:0.43, T:0.05
Consensus pattern (101 bp):
CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
CCACGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
Found at i:12695 original size:830 final size:811
Alignment explanation
Indices: 10875--12713 Score: 2264
Period size: 808 Copynumber: 2.2 Consensus size: 811
10865 TCCTCCCGCG
* * *
10875 AACGTGTTCTTCCCTTAGCGTTGCGCCGGTCGGTTGGGTACCCCGGCAACTGTGCGCACCCGGTG
1 AACGTGTTCGTCCCTTAGCGTTGCGTCGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTG
* *
10940 CTCC-CACGGTGTGCGCCGCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCC
66 CCCCGCA-GGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCT-C
* * * * *
11004 TGGCCGGGTGCGTGCCGCGGCCGCCCCGCACCCCCCAGGGTGGGCGAGGCGCGCACC-GTGCTCC
129 TGGCC-CGTGCGTGCCGCGGCCG-CCCGCA--CCCGAGGGCGGGCGAGGCGCGCACCGGCGCCCC
* * * * *
11068 GCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGCGCGCACCGTTCTCCCGC
190 GCATGGCGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGC
* *
11133 CCGCAGCCGAGGGTGGGCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCCA
255 CCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCATGGTGTGCGCCCCGACCGCCCCCA
* * * * *
11198 CACCAGGGGGCGGGCAGGGCGCGCACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCC
320 CACCAGGGGGCGGGCAAGGCGCG-ACC--GCACCGGGCCGGGGGCGAGCCTCGGCCGCCCGCACC
* *
11263 CGAGGGTGGGCGAGGCGCGCGCCGGCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGG
382 CGAGGGTGGGCGAGGCGCGCACCGGCTGCCCGAGGTGGTGCGGGCTGGCGCCACCCTAGGTGCGG
* * * * * *
11328 CAGAAAAACCGACCCTGTTTCGAACGTGGTCCTGTCCGCTGGTAACGGATATGAAATGCCCCTTA
447 CAGAAAAACCGACCCTGTTTCGAACGTGGGCCTCTCCACTGGTAACGAAAAAGAAATGCCCCTTA
*
11393 AGCTCTATAGGGGGTGTGATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTG
512 AGCTCTATAGGGGGTGTGATACTTGAGCAACCAAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTG
* *
11458 CCACCCAGCACCCGTCGCGTGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTC
577 CCACCCAGCACCCATCGCGTGCCACCCCCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTC
* *
11523 TCCGGCGACGGTGCCGAGGACCGCGAATTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGG
642 TCCGGCGACGGTGCCGACGACCCCGAATTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGG
11588 CAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGCGTGCGC
707 CAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGCGTGCGC
11653 AACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCA
772 AACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCA
*
11693 AACGTGTTCGTCCCTTAGCGTTGCGTCGGTCGGTTGGGTACCCCGACAACGGTGCGCACCCGGTG
1 AACGTGTTCGTCCCTTAGCGTTGCGTCGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTG
* *
11758 CCCCGCGAGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCCCCGTGCTCC
66 CCCCGC-AGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCT
* * *
11823 CGCCCGGGTCCGTGCCGCGGCCGCCCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCG
130 GGCCC--GTGCGTGCCGCGGCCGCCCGCACCCGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGC-
* * *
11888 A-GGTGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCC
192 ATGGCGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCC
* *
11952 GCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGCCG-CCCC-CA
257 GCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCATGGTGTGCGCCCCGACCGCCCCCACA
*
12015 CCACGGGGGCGGG-AAGG-GCG-CC-C-CCGGGCCGGGTGCGAGCCTCGGCC-CCGCGCACCCGA
322 CCA-GGGGGCGGGCAAGGCGCGACCGCACCGGGCCGGGGGCGAGCCTCGGCCGCC-CGCACCCGA
* * * *
12074 GGGTGGGCGTGGCGCGCACCGGGTGCCCGAGGTGGTG-GGGTCTCGGC-CCACCCTCGGTGCGGG
385 GGGTGGGCGAGGCGCGCACCGGCTGCCCGAGGTGGTGCGGG-CT-GGCGCCACCCTAGGTGCGGC
* * * *
12137 AGAAAAACTGTCCCTGTTTCGAACGTGGGCAC-CTCCACTGGTGAC-AACAAAGAAAT-CCATCT
448 AGAAAAACCGACCCTGTTTCGAACGTGGGC-CTCTCCACTGGTAACGAA-AAAGAAATGCC-CCT
* * *
12199 TAAGCTCTATAGGGGGTGTGATACTTGAGCAACCAAGGGGGGGCAGT-GGGGTGTCCTGCGGGGC
510 TAAGCTCTATAGGGGGTGTGATACTTGAGCAACCAAGGGGGGGCACTGGGGGTGCCCCGCGGGGC
* *
12263 TGCCACCCTGCACCCATCGCGTGCCGTCGCCCACACCCCTCCCCCATTCGCCGGGGCTCCCCCCC
575 TGCCACCCAGCACCCAT--C--G-CGT-G--C-CA---C-CCCCCACTCGCCGGGGCT-CCCCCC
12328 ACCGCCGGTCAGGTTCTCCGGCGGTGCTCCGGCGACGGTGCCGACGACCCCGAATTCGGCACCGA
626 ACCGCCGGTCAGG---T-------T-CTCCGGCGACGGTGCCGACGACCCCGAATTCGGCACCGA
* * * *
12393 TAGCACATGCGGAGGCCCACGCGTGTGCAACGAGTCCCTCCCCAAGCATCCGTCCCTCCCCCCTC
680 TAGCACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCT-CCCAACCATCCGGCCCTCCCCCCTC
* * * * * *
12458 -C-AAGCATGCGTAGGGCCGAGCGTGTGCAACGAGTCCCTCCCCGGCATCTGTCCCT-CCCCTC-
744 TCTAA-CATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCA
*
12519 TCCA
808 ACCA
* * * **
12523 AACGTGTTCGTCCCTTACCGTTGCATCGGTCGGTTGGGTACCCCGGCAAGGGTGCGCACCCATTG
1 AACGTGTTCGTCCCTTAGCGTTGCGTCGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTG
* * * * *
12588 CGCCGCATGGTGCGCGCCCCGACCGCTCCCA-CCCTGGGGGCGGGAAGGGCGCGCACCATGCTCG
66 CCCCGCA-GGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTC-
*** * ** *
12652 TGGCTTTTGCGGGTGCCGCGGCCGTCCGCACCCGAGGGCGGGCGTTGCGCGCGCCGGGCGCC
129 TGGCCCGTGC--GTGCCGCGGCCGCCCGCACCCGAGGGCGGGCGAGGCGCGCACC-GGCGCC
12714 TGAGGTGGTG
Statistics
Matches: 882, Mismatches: 94, Indels: 77
0.84 0.09 0.07
Matches are distributed among these distances:
807 38 0.04
808 168 0.19
809 5 0.01
811 1 0.00
812 5 0.01
813 1 0.00
814 3 0.00
815 9 0.01
816 37 0.04
817 115 0.13
818 75 0.09
819 70 0.08
820 17 0.02
821 19 0.02
824 1 0.00
828 2 0.00
829 30 0.03
830 128 0.15
831 14 0.02
832 121 0.14
833 23 0.03
ACGTcount: A:0.13, C:0.39, G:0.35, T:0.13
Consensus pattern (811 bp):
AACGTGTTCGTCCCTTAGCGTTGCGTCGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTG
CCCCGCAGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCTG
GCCCGTGCGTGCCGCGGCCGCCCGCACCCGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCATGG
CGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGCAC
CCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCATGGTGTGCGCCCCGACCGCCCCCACACCAG
GGGGCGGGCAAGGCGCGACCGCACCGGGCCGGGGGCGAGCCTCGGCCGCCCGCACCCGAGGGTGG
GCGAGGCGCGCACCGGCTGCCCGAGGTGGTGCGGGCTGGCGCCACCCTAGGTGCGGCAGAAAAAC
CGACCCTGTTTCGAACGTGGGCCTCTCCACTGGTAACGAAAAAGAAATGCCCCTTAAGCTCTATA
GGGGGTGTGATACTTGAGCAACCAAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGC
ACCCATCGCGTGCCACCCCCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGAC
GGTGCCGACGACCCCGAATTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGGCAACGAGTC
CCTCCCAACCATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGCGTGCGCAACGAGTCC
CTCCCCAGCATCCGTCCCTCCCCCCCAACCA
Found at i:13892 original size:403 final size:404
Alignment explanation
Indices: 13043--14623 Score: 2523
Period size: 403 Copynumber: 3.9 Consensus size: 404
13033 AAACCTTGTC
* * ** * *
13043 GCGGTGATGGAGACCCTGCGCGGTCCAGGTGATCCGTGGCAAGGTCCCCGGTCGCCGTATGCTGC
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCG-C-TACG-TGC
** * * * * * *
13108 -CGATCGCATGGCACGCGTGTGTGGGGCACAAGGGGCGTGGTCGTGCCGTAGGGTTAA-GCTTC-
63 GCGATCGTTTGGCACGCGTGTG-CGGGTA-ACGGGGCGTGGTCGTGCCGGAAGG-CAAGGC-TCG
* * *
13170 CACCTGCGCTGATTCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTGTGGCGTGGGCAGA
124 CACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGA
*
13235 AGCTGCAGGTG-GGGCTTGGCCTGGCCATGCCCCGT-GAGCAGGGGCAGTCTCGCGGCCCTTGCT
189 AGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCC-TCGAGCAGGGGCAGTCTCGCGGCCCTTGCA
* * * * * *
13298 TCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTG
253 TCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGG
* * * *
13363 ATCGCGCCCCGGCAGAGTGTCCCTCTCGGTTAAGATCCAGGTCGCGCGTGCCTTGCGATCGTGGT
318 TTCGCGCCCCGGCA-AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGT
*
13428 TTTCGGTGGCCGGATGCCCAGCT
382 TTTCGGTGACCGGATGCCCAGCT
* *
13451 GCGGTGACGG-GACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
13515 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
13580 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
131 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
* *
13645 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCAAC
13710 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
261 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
13775 CCGGC-AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGA
326 CCGGCAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGA
13839 CCGGATGCCCAGCT
391 CCGGATGCCCAGCT
13853 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
13918 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
13983 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
131 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
* *
14048 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCAAC
14113 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
261 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
14178 CCGGC-AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGA
326 CCGGCAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGA
14242 CCGGATGCCCAGCT
391 CCGGATGCCCAGCT
14256 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
*
14321 ATCGTTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
*
14386 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGCT-GGCAGATGCTGC
131 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCG-TGGGCAGAAGCTGC
*
14450 AGGTGAGGGCGTGGCCTGGCCATTGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCA
195 AGGTGAGGGCTTGGCCTGGCCA-TGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCA
* * * * * *
14515 ACGGTGGGCTCGTCTTGCCGGTTGCCTGTCGGGGATTGTGCTCGATGTTCCTGTTCCTCGCACGG
259 ACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATG---C-G--CCTGGCATGG
* *
14580 GTCGCGCCCCGGCAGAGTGTCCCTCTCGATTGAAATCCAGGTCG
318 TTCGCGCCCCGGCA-AGTGTCCCTCTCGATTAAAATCCAGGTCG
14624 TGCCCAGCTG
Statistics
Matches: 1110, Mismatches: 47, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
402 82 0.07
403 699 0.63
404 209 0.19
405 22 0.02
406 1 0.00
407 39 0.04
408 10 0.01
410 20 0.02
412 28 0.03
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (404 bp):
GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCAAC
GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
CCGGCAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGA
CCGGATGCCCAGCT
Found at i:17125 original size:13 final size:13
Alignment explanation
Indices: 17107--17131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17097 CATAAAGTGT
17107 TGTATCGATACAA
1 TGTATCGATACAA
17120 TGTATCGATACA
1 TGTATCGATACA
17132 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:17129 original size:33 final size:33
Alignment explanation
Indices: 17087--17153 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
17077 TTCAACGATT
17087 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
17120 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
17153 T
1 T
17154 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:17191 original size:13 final size:13
Alignment explanation
Indices: 17173--17197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17163 TGCCAAAAAA
17173 TGTATCGATACAT
1 TGTATCGATACAT
17186 TGTATCGATACA
1 TGTATCGATACA
17198 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17264 original size:52 final size:52
Alignment explanation
Indices: 17206--17334 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
17196 CACTGATCTT
*
17206 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
17258 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
17310 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGTAGGCAAATTT
17335 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:21474 original size:10 final size:10
Alignment explanation
Indices: 21459--21485 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21449 TGCTAACTAA
21459 GTTTTTGTTT
1 GTTTTTGTTT
21469 GTTTTTGTTT
1 GTTTTTGTTT
21479 GTTTTTG
1 GTTTTTG
21486 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:31252 original size:28 final size:27
Alignment explanation
Indices: 31180--31284 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 27
31170 GGCGTCCTCC
31180 AAACAAAAAAAAAAAAAAAAAACGAAAAA
1 AAACAAAAAAAAAAAAAAAAAA--AAAAA
*
31209 AAATGAAATACCAAAAAAAAAAAAAAAAAAAA
1 AAA--CAA-A--AAAAAAAAAAAAAAAAAAAA
* * *
31241 AAACAAGAAAAAACAAAAAACAATAAAA
1 AAACAA-AAAAAAAAAAAAAAAAAAAAA
*
31269 AAACAAACAAAAAAAA
1 AAACAAAAAAAAAAAA
31285 GGGGGTCCGG
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
27 8 0.13
28 23 0.37
29 3 0.05
30 3 0.05
31 2 0.03
32 9 0.14
34 15 0.24
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.03
Consensus pattern (27 bp):
AAACAAAAAAAAAAAAAAAAAAAAAAA
Found at i:31252 original size:41 final size:42
Alignment explanation
Indices: 31184--31284 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 42
31174 TCCTCCAAAC
** * *
31184 AAAAAAAAAAAAAAAAAACGAAAAAAAATGAAATACCAAAAA
1 AAAAAAAAAAAAAAAAAACGAAAAAAAAACAAAAAACAAAAA
* *
31226 AAAAAAAAAAAAAAAAAAC-AAGAAAAAACAAAAAACAATAA
1 AAAAAAAAAAAAAAAAAACGAAAAAAAAACAAAAAACAAAAA
* *
31267 AAAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
31285 GGGGGTCCGG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 32 0.63
42 19 0.37
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (42 bp):
AAAAAAAAAAAAAAAAAACGAAAAAAAAACAAAAAACAAAAA
Found at i:31302 original size:1 final size:1
Alignment explanation
Indices: 31184--31284 Score: 76
Period size: 1 Copynumber: 101.0 Consensus size: 1
31174 TCCTCCAAAC
** ** * ** * *
31184 AAAAAAAAAAAAAAAAAACGAAAAAAAATGAAATACCAAAAAAAAAAAAAAAAAAAAAAACAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
31249 AAAAACAAAAAACAATAAAAAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
31285 GGGGGTCCGG
Statistics
Matches: 76, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (1 bp):
A
Done.