Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 389 of 410
Found at i:118057976 original size:132 final size:132
Alignment explanation
Indices: 118057782--118058185 Score: 583
Period size: 132 Copynumber: 3.1 Consensus size: 132
118057772 TCCACTGGAG
** * * * * *
118057782 ACGAGATCTGCAATCTTCATCCTACTCCACTACAATTTTAGGGAACTAGGATGGTGGTTTAAATC
1 ACGAGATCTAAAATC-TCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATC
*
118057847 TGCTTCACTGCAACTTCAGGAAGCTTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGG
65 TGCTTCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGG
118057912 GAA
130 GAA
* *
118057915 ACGAGATCTAAAATTTCAGCTTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCT
1 ACGAGATCTAAAATCTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCT
* * * * * * * *
118057980 GCTTCGCTGCAACTTCAGGATGCCCAGATTCGCTGCCTTCGATCTGCTCTACTGTAACTTCAGGG
66 GCTTCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
118058045 AA
131 AA
* * *
118058047 ACAAGATCTACAATCTCTGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCT
1 ACGAGATCTAAAATCTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCT
* * *
118058112 ACTTCACTGCAATTTCAGAAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
66 GCTTCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
118058177 AA
131 AA
118058179 ACGAGAT
1 ACGAGAT
118058186 TTGTAGGATT
Statistics
Matches: 236, Mismatches: 35, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
132 224 0.95
133 12 0.05
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (132 bp):
ACGAGATCTAAAATCTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCT
GCTTCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
AA
Found at i:118067934 original size:14 final size:15
Alignment explanation
Indices: 118067915--118067944 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
118067905 CTTGGTATCA
118067915 TTGATGTT-TGATGG
1 TTGATGTTGTGATGG
118067929 TTGATGTTGTGATGG
1 TTGATGTTGTGATGG
118067944 T
1 T
118067945 GAGGCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (15 bp):
TTGATGTTGTGATGG
Found at i:118068876 original size:29 final size:29
Alignment explanation
Indices: 118068810--118068966 Score: 280
Period size: 29 Copynumber: 5.3 Consensus size: 29
118068800 GACGAGATTG
118068810 GCACTAAGTGTGC-ATGCTGAAAATTATATA
1 GCACTAAGTGTGCGA-GCTGAAAA-TATATA
118068840 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
118068869 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
118068898 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
118068928 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
118068957 GCACTAAGTG
1 GCACTAAGTG
118068967 CGCGGATTCA
Statistics
Matches: 125, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
29 74 0.59
30 50 0.40
31 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:118068926 original size:59 final size:58
Alignment explanation
Indices: 118068810--118068966 Score: 280
Period size: 59 Copynumber: 2.7 Consensus size: 58
118068800 GACGAGATTG
118068810 GCACTAAGTGTGC-ATGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGA-GCTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATATA
118068869 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAA-TATATA
118068928 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTG
118068967 CGCGGATTCA
Statistics
Matches: 96, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
58 29 0.30
59 66 0.69
60 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:118072693 original size:29 final size:29
Alignment explanation
Indices: 118072648--118072867 Score: 361
Period size: 29 Copynumber: 7.6 Consensus size: 29
118072638 GTGACAAGAT
118072648 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
118072677 TGACACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
118072706 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
118072735 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
118072764 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
118072793 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
* ***
118072822 TGGCACTATGTGTGC-AAGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAA-CTTAAATTATA
118072851 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
118072868 GATCGTTTAT
Statistics
Matches: 179, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
28 2 0.01
29 176 0.98
30 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTATA
Found at i:118080732 original size:29 final size:29
Alignment explanation
Indices: 118080512--118080731 Score: 377
Period size: 29 Copynumber: 7.6 Consensus size: 29
118080502 GTGACAAGAT
118080512 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
118080541 TGACACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
118080570 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
118080599 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
118080628 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
118080657 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
* * ***
118080686 TGGCACTATGTGTGCGAGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
118080715 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
118080732 GATCGTTTAT
Statistics
Matches: 181, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 181 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTATA
Found at i:118084200 original size:132 final size:132
Alignment explanation
Indices: 118083922--118084574 Score: 588
Period size: 132 Copynumber: 5.0 Consensus size: 132
118083912 TTGCCTCACC
* * * * * * * *
118083922 TTAGAAAATACGAGTGAACTTCCGAAGAGATATTCGATTATTTTGAACAAACGGGAGATTGCAAC
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAAC
* * * *
118083987 CCAGCACGATAGGGTACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCGTTTTAAA-GAG
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGGA-
118084051 TTT
130 TTT
* * * * * *
118084054 TTAGAAAA-AGTGAGTGAAATTCCGAAGGGATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAA
1 TTAGAAAACA-TGAGTGAAATTCCGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAA
* * *
118084118 CCCAGCACGATAGGGCACGATT-CTCGAATTGCCAAACATTGAACATCGCCTTCGTTTTAAAGGG
65 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAA-GG
*
118084182 TTTT
129 ATTT
* * * * *
118084186 CTTA-AAAACATGAGTGAAA-ACCTAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCACA
1 -TTAGAAAACATGAGTGAAATTCC-GAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCA
* * * ** *
118084249 ACCCAGCACGATAGGGCATGATT-CCCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAAATG
64 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGG
118084313 ATTT
129 ATTT
* * ** * * *
118084317 TTAGAAGACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGA-AAACGAGAAATTGCAA
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTGTTTTGA-ACAAACGAGAAATCGCAA
* * * * ** * *
118084381 CCCAACAC-ATTAGGGCACGATTCCGCGAATTGCGAAATATTAAACCTTGCCTTCGTTTTAAAGA
65 CCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGG
118084445 ATTT
129 ATTT
** * * * * * *
118084449 TTA-AAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAATTTGCGA
1 TTAGAAA-ACATGAGTGAAATTCCGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAA
* ** ** * *
118084513 CCCAGCAC-ATTAGGGCACGATTCCACGAATCACCAAGTATCGAACATCGCCTTTGTTTTAAA
65 CCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAA
118084575 TAATTGTGAA
Statistics
Matches: 422, Mismatches: 86, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
130 4 0.01
131 106 0.25
132 307 0.73
133 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (132 bp):
TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAAC
CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGGAT
TT
Found at i:118084401 original size:263 final size:264
Alignment explanation
Indices: 118083951--118084574 Score: 616
Period size: 263 Copynumber: 2.4 Consensus size: 264
118083941 TTCCGAAGAG
* * * ** *
118083951 ATATTCGATTATTTTGAACAAACGGGAGATTGCAACCCAGCACGATAGGGTACTATTCCCCGAAT
1 ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCACTATTCCCCGAAT
* * * *
118084016 TGCCAAACATCGAACATTTCTTTCGTTTTAAAGAGTTTTTAGAAAAAGTGAGTGAAATTCCGAAG
66 TGCCAAACACCGAACATTGCCTTCGTTTTAAAGAGTTTTTAGAAAAACTGAGTGAAATTCCGAAG
* * * * *
118084081 GGATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATT-CTCGA
131 GGATATTCGATCATTTCGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATTCCGCGA
* **
118084145 ATTGCCAAACATTGAACATCGCCTTCGTTTTAAAGGGTTTTCTTAAAA-ACATGAGTGAAAACCT
196 ATTGCCAAACATTAAACATCGCCTTCGTTTTAAA-GAATTT-TTAAAAGACATGAGTGAAAACCT
118084209 AAAGGA
259 AAAGGA
*
118084215 ATATTCAATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA-TGATT-CCCGAA
1 ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCACT-ATTCCCCGAA
* ** * * **
118084278 TTGTCAAACACCGAGTATTGCCTTCGTTTTAAATGA-TTTTTAGAAGACCTGAGTGAAATTTTGA
65 TTGCCAAACACCGAACATTGCCTTCGTTTTAAA-GAGTTTTTAGAAAAACTGAGTGAAATTCCGA
* * * * **
118084342 AGGGATATTTGATTATTTTGAGA-AAACGAGAAATTGCAACCCAACAC-ATTAGGGCACGATTCC
129 AGGGATATTCGATCATTTCGA-ACAAACGAAAAAGCGCAACCCAACACGA-TAGGGCACGATTCC
* * * * **
118084405 GCGAATTGCGAAATATTAAACCTTGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATT
192 GCGAATTGCCAAACATTAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAAAC
* * *
118084470 TTGAAGGG
257 CTAAAGGA
* * * * ** * * *
118084478 ATATTCGATTATTTTGAGCAAACGCGAATTTGCGACCCAGCAC-ATTAGGGCACGATTCCACGAA
1 ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGA-TAGGGCACTATTCCCCGAA
** ** * * *
118084542 TCACCAAGTATCGAACATCGCCTTTGTTTTAAA
65 TTGCCAAACACCGAACATTGCCTTCGTTTTAAA
118084575 TAATTGTGAA
Statistics
Matches: 290, Mismatches: 61, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
262 8 0.03
263 170 0.59
264 112 0.39
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (264 bp):
ATATTCAATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCACTATTCCCCGAAT
TGCCAAACACCGAACATTGCCTTCGTTTTAAAGAGTTTTTAGAAAAACTGAGTGAAATTCCGAAG
GGATATTCGATCATTTCGAACAAACGAAAAAGCGCAACCCAACACGATAGGGCACGATTCCGCGA
ATTGCCAAACATTAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAAACCTAA
AGGA
Found at i:118088218 original size:19 final size:19
Alignment explanation
Indices: 118088194--118088231 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
118088184 TAATTTAGTT
118088194 GAAGGATCAAAAGACCATG
1 GAAGGATCAAAAGACCATG
118088213 GAAGGATCAAAAGACCATG
1 GAAGGATCAAAAGACCATG
118088232 TAGAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.11
Consensus pattern (19 bp):
GAAGGATCAAAAGACCATG
Found at i:118091775 original size:13 final size:13
Alignment explanation
Indices: 118091757--118091786 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
118091747 ATTTTAGTTA
118091757 AATTAAATTGTAT
1 AATTAAATTGTAT
118091770 AATTAAATTGTAT
1 AATTAAATTGTAT
118091783 AATT
1 AATT
118091787 TAACCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
AATTAAATTGTAT
Found at i:118096327 original size:18 final size:18
Alignment explanation
Indices: 118096304--118096341 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
118096294 GTGTCAATTC
118096304 TTCAAGTAAAATAAAGAT
1 TTCAAGTAAAATAAAGAT
118096322 TTCAAGTAAAATAAAGAT
1 TTCAAGTAAAATAAAGAT
118096340 TT
1 TT
118096342 TATAAAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (18 bp):
TTCAAGTAAAATAAAGAT
Found at i:118098095 original size:9 final size:9
Alignment explanation
Indices: 118098077--118098114 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
118098067 TGGCACTGGA
*
118098077 GACGAGGAT
1 GACGACGAT
*
118098086 GACGATGAT
1 GACGACGAT
118098095 GACGACGAT
1 GACGACGAT
118098104 GACGACGAT
1 GACGACGAT
118098113 GA
1 GA
118098115 TGAGGGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.37, T:0.13
Consensus pattern (9 bp):
GACGACGAT
Found at i:118098131 original size:6 final size:6
Alignment explanation
Indices: 118098122--118098171 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
118098112 TGATGAGGGT
* * * * *
118098122 GAGGAA GAGGAA GAGGAG GAAGAA GAGGAA GAAGAT GAGGAG GAGGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
118098170 GA
1 GA
118098172 AGAACTTCAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (6 bp):
GAGGAA
Found at i:118098142 original size:9 final size:9
Alignment explanation
Indices: 118098125--118098174 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
118098115 TGAGGGTGAG
118098125 GAAGAGGAA
1 GAAGAGGAA
*
118098134 GAGGAGGAA
1 GAAGAGGAA
118098143 GAAGAGGAA
1 GAAGAGGAA
* *
118098152 GAAGATGAG
1 GAAGAGGAA
*
118098161 GAGGAGGAA
1 GAAGAGGAA
118098170 GAAGA
1 GAAGA
118098175 ACTTCAGCCC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (9 bp):
GAAGAGGAA
Found at i:118098167 original size:18 final size:18
Alignment explanation
Indices: 118098121--118098174 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
118098111 ATGATGAGGG
*
118098121 TGAGGAAGAGGAAGAGGA
1 TGAGGAAGAGGAAGAAGA
* *
118098139 GGAAGAAGAGGAAGAAGA
1 TGAGGAAGAGGAAGAAGA
*
118098157 TGAGGAGGAGGAAGAAGA
1 TGAGGAAGAGGAAGAAGA
118098175 ACTTCAGCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.04
Consensus pattern (18 bp):
TGAGGAAGAGGAAGAAGA
Found at i:118103902 original size:29 final size:28
Alignment explanation
Indices: 118103863--118103933 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
118103853 ATTTATATTG
* *
118103863 TTATAATTTTAAAATATTAAATTA-AATTT
1 TTATTATTTTAAAA-ATTAAAATATAA-TT
118103892 TTATTATTTTATAAAATTAAAATATAATT
1 TTATTATTTTA-AAAATTAAAATATAATT
118103921 TTATTATTATTAA
1 TTATTATT-TTAA
118103934 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 29 0.78
30 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATTATTTTAAAAATTAAAATATAATT
Found at i:118103966 original size:82 final size:80
Alignment explanation
Indices: 118103800--118103970 Score: 195
Period size: 82 Copynumber: 2.1 Consensus size: 80
118103790 GTGAGAAATG
* * *
118103800 AAATGAAATTTTATATTTTATAATAATAAAAATATAATTTTATCATTTTAATAATTTATATTGTT
1 AAATTAAATTTTATATTTTATAATAATAAAAATATAATTTTATCATTTTAAT-ATTAAAATTGTT
* *
118103865 ATAATTTTAAAATATT
65 ATAATTATAAAATACT
* *
118103881 AAATTAAATTTTTATTATTTTATAA-AATTAAAATATAATTTTATTATTATTAAT-TTAAAATT-
1 AAATTAAA-TTTTA-TATTTTATAATAATAAAAATATAATTTTATCATT-TTAATATTAAAATTG
*
118103943 TTATAAATTATAAACTACCT
63 TTAT-AATTATAAAATA-CT
118103963 AAATTAAA
1 AAATTAAA
118103971 AATTTACCAG
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
80 4 0.05
81 23 0.30
82 35 0.45
83 15 0.19
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (80 bp):
AAATTAAATTTTATATTTTATAATAATAAAAATATAATTTTATCATTTTAATATTAAAATTGTTA
TAATTATAAAATACT
Found at i:118104641 original size:19 final size:21
Alignment explanation
Indices: 118104602--118104643 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
118104592 CTTGGTCCGA
118104602 ATATTATATTATAAAATAATT
1 ATATTATATTATAAAATAATT
*
118104623 ATATTA-ATTAT-ATATAATT
1 ATATTATATTATAAAATAATT
118104642 AT
1 AT
118104644 CTATACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTATATTATAAAATAATT
Found at i:118107507 original size:2 final size:2
Alignment explanation
Indices: 118107500--118107524 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
118107490 CAAATAAGAG
118107500 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
118107525 ATGTATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118109847 original size:17 final size:17
Alignment explanation
Indices: 118109808--118109860 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
118109798 TATACAAATA
118109808 AAATAATATTA-TTATGTT
1 AAAT-ATATTATTTAT-TT
118109826 AAATATATTATTTATTT
1 AAATATATTATTTATTT
* * *
118109843 TAATATCTCATTTATTT
1 AAATATATTATTTATTT
118109860 A
1 A
118109861 TATAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 22 0.73
18 8 0.27
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATATATTATTTATTT
Found at i:118118349 original size:21 final size:22
Alignment explanation
Indices: 118118324--118118368 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
118118314 TATGATTTTA
118118324 AAAAAAAAT-TAGAAAAATTAT
1 AAAAAAAATATAGAAAAATTAT
*
118118345 -AAAAAAATATAGGAAAATTAT
1 AAAAAAAATATAGAAAAATTAT
118118366 AAA
1 AAA
118118369 TTTTATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 11 0.52
22 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAAAAATATAGAAAAATTAT
Found at i:118118747 original size:20 final size:21
Alignment explanation
Indices: 118118724--118118766 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
118118714 AAAAACATTT
118118724 TTTATTAAAAAAATT-TAAAA
1 TTTATTAAAAAAATTATAAAA
* *
118118744 TTTATTAGAAATATTATAAAA
1 TTTATTAAAAAAATTATAAAA
118118765 TT
1 TT
118118767 ATAGGGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTATTAAAAAAATTATAAAA
Found at i:118118889 original size:17 final size:20
Alignment explanation
Indices: 118118849--118118889 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
118118839 ATTTATAATT
*
118118849 TTTAATAATGTGTTTATCAT
1 TTTAATAATGTGTTTATCAG
118118869 TTTAATAAT-T-TTTAT-AG
1 TTTAATAATGTGTTTATCAG
118118886 TTTA
1 TTTA
118118890 TTTTATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 1 0.05
20 9 0.45
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAATAATGTGTTTATCAG
Found at i:118118899 original size:21 final size:23
Alignment explanation
Indices: 118118867--118118909 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
118118857 TGTGTTTATC
*
118118867 ATTTTAATAATTT-TTATAGTTT
1 ATTTTAATAATTTCTTAAAGTTT
118118889 ATTTT-ATAATTTCTTAAAGTT
1 ATTTTAATAATTTCTTAAAGTT
118118910 AATTAAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
ATTTTAATAATTTCTTAAAGTTT
Found at i:118123201 original size:14 final size:14
Alignment explanation
Indices: 118123182--118123212 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
118123172 ACATTTGGGC
118123182 TCTTGAACTATGAT
1 TCTTGAACTATGAT
118123196 TCTTGAACTATGAT
1 TCTTGAACTATGAT
118123210 TCT
1 TCT
118123213 CACCTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (14 bp):
TCTTGAACTATGAT
Found at i:118123932 original size:11 final size:11
Alignment explanation
Indices: 118123916--118123941 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
118123906 TAATTTAGAA
118123916 AAAAATAAAAT
1 AAAAATAAAAT
118123927 AAAAATAAAAT
1 AAAAATAAAAT
118123938 AAAA
1 AAAA
118123942 TGAACACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:118126061 original size:47 final size:47
Alignment explanation
Indices: 118125997--118126107 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
118125987 GACATTGAGT
*
118125997 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
118126044 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
118126091 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
118126108 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:118130166 original size:81 final size:76
Alignment explanation
Indices: 118130076--118130222 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 76
118130066 AAATTTAATT
* *
118130076 TTTTTAAAATGCATAAAAAATTTAAAAAAGTTTTAAAAAATTAAACCCCTAATATTTTTTACATT
1 TTTTCAAAATGCATAAAAAATTT--AAAA--TTAAAAAAATTAAACCCCTAAT-TTTTTTACATT
118130141 CAATTAAGTACTTTAA
61 CAATTAAGTACTTTAA
* * * ***
118130157 TTTTCAAAATGTATAATAAATTTTAAATTAAAAAAATTAAATTTCTAATTTTTTTACATTCAATT
1 TTTTCAAAATGCATAAAAAATTTAAAATTAAAAAAATTAAACCCCTAATTTTTTTACATTCAATT
118130222 A
66 A
118130223 GTTACTTGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 17 0.29
77 18 0.31
79 3 0.05
81 20 0.34
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (76 bp):
TTTTCAAAATGCATAAAAAATTTAAAATTAAAAAAATTAAACCCCTAATTTTTTTACATTCAATT
AAGTACTTTAA
Found at i:118144004 original size:58 final size:58
Alignment explanation
Indices: 118143881--118144037 Score: 224
Period size: 59 Copynumber: 2.7 Consensus size: 58
118143871 AAAGTTGCTA
** *
118143881 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACCACCAGCATGTCAAGGGTTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGAACCAGCATGTCAAGGATTAAATT
* * *
118143939 TGTTTTGGCACTAAAAGTAAACCACAAGCCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGCCACAAGAACCAGCATGTCAAGGATTAAATT
* * *
118143998 TGTTTGGGCTCTAAAAGCAACCGCAAGCCACAAGTACCAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGAACCAG
118144038 TCCAACCCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 37 0.43
59 50 0.57
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGCCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:118148946 original size:26 final size:26
Alignment explanation
Indices: 118148898--118148948 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
118148888 AAATAATTTA
* *
118148898 TTTTATATTATTTAAAAATTATATAT
1 TTTTATAATATATAAAAATTATATAT
118148924 TTTTATAATATATAATAAA-TATATA
1 TTTTATAATATATAA-AAATTATATA
118148949 ACTATATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTATAATATATAAAAATTATATAT
Found at i:118153801 original size:32 final size:32
Alignment explanation
Indices: 118153755--118153819 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
118153745 GGGCCTTTAG
118153755 AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
1 AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
*
118153787 AGTAAGACTTGGGTAGTAAAGGAGGGTTGCGA
1 AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
118153819 A
1 A
118153820 TTTCCTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.42, T:0.20
Consensus pattern (32 bp):
AGTAAGACTGGGGTAGTAAAGGAGGGTTGCGA
Found at i:118159441 original size:19 final size:18
Alignment explanation
Indices: 118159412--118159453 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
118159402 CTCCTTGTAT
118159412 TTTGTTTTTATTTATTTA
1 TTTGTTTTTATTTATTTA
*
118159430 TTTGTTTATTATTTATTTT
1 TTTGTTT-TTATTTATTTA
118159449 TTTGT
1 TTTGT
118159454 CTCTTCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (18 bp):
TTTGTTTTTATTTATTTA
Found at i:118166952 original size:19 final size:20
Alignment explanation
Indices: 118166930--118166978 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
118166920 AAATCCAAAT
118166930 TAAAATACTAAAATTCA-GA
1 TAAAATACTAAAATTCAGGA
*
118166949 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAGGA
118166969 TAAGAATACT
1 TAA-AATACT
118166979 GATGTGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 14 0.56
20 5 0.20
21 4 0.16
22 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:118169992 original size:15 final size:15
Alignment explanation
Indices: 118169966--118170003 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
118169956 TAAAATCTTA
118169966 AAATTCTATAAAACTC
1 AAATT-TATAAAACTC
118169982 AAATTTATAAAACTC
1 AAATTTATAAAACTC
118169997 AAATTTA
1 AAATTTA
118170004 ATCGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTTATAAAACTC
Found at i:118172988 original size:26 final size:26
Alignment explanation
Indices: 118172952--118173061 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
118172942 CATGAAATTC
118172952 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
118172978 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
118173004 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
118173030 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
118173056 TTATCA
1 TTATCA
118173062 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:118180530 original size:2 final size:2
Alignment explanation
Indices: 118180525--118180549 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
118180515 AATAATTTCT
118180525 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
118180550 TAGTGTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118186134 original size:50 final size:50
Alignment explanation
Indices: 118186059--118186285 Score: 346
Period size: 50 Copynumber: 4.5 Consensus size: 50
118186049 CCATGGCAAC
* * *
118186059 AAGTGATAAATGATAGCTTCGGCTACACTTATTTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
118186109 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
118186159 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
118186209 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATTA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
118186259 CAAGTGAAAAGTGGTAGCTTCGACTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
118186286 CTGATCAGTG
Statistics
Matches: 164, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 141 0.86
51 23 0.14
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:118186299 original size:31 final size:31
Alignment explanation
Indices: 118186261--118186470 Score: 280
Period size: 31 Copynumber: 6.8 Consensus size: 31
118186251 ACAAATTACA
*
118186261 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
118186292 AGTGAAAAGTGGTAGTTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
118186323 AGTG-AAAGTGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
118186353 AGTGAAAAGTGGTAGCATCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
118186384 AGTGAAAAGTCGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
118186415 AGTGAAAAATGGTAG-ATCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
118186446 TGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
118186471 AAGTGACAAG
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
30 28 0.18
31 123 0.80
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:118186565 original size:47 final size:46
Alignment explanation
Indices: 118186495--118186618 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
118186485 AAGTGATTTC
* * *
118186495 CGTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
118186541 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
118186588 CGTGTAAGACCATAGCTGGGCTATGACATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
118186619 ATATGTGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:118186653 original size:49 final size:48
Alignment explanation
Indices: 118186577--118186708 Score: 159
Period size: 49 Copynumber: 2.9 Consensus size: 48
118186567 GCATCAGTGA
*
118186577 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
* ** *
118186625 GATATGTGATTATGTGTAAGACGTTAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
*
118186674 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATC
118186709 ATTATGTGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
42 27 0.36
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.16
49 34 0.45
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
Found at i:118186684 original size:42 final size:42
Alignment explanation
Indices: 118186625--118186735 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
118186615 ATCGATATGT
* **
118186625 GATATGTGATTATGTGTAAGACGTTAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
118186667 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* *
118186709 -ATTATGTGAAGATGTATAAGACCATAG
1 GA-TATGTGAATATGTGTAAGACCATAG
118186736 TTGAACTATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 60 0.98
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:118186745 original size:42 final size:42
Alignment explanation
Indices: 118186657--118186752 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
118186647 GTTAGCTGGG
* * **
118186657 CTATGGCATCGATATATGAATATGTGTAAGACCATAGCTGGG
1 CTATGGCATCGATATATGAAGATGTATAAGACCATAGCTGAA
* *
118186699 CTATGGCATC-ATTATGTGAAGATGTATAAGACCATAGTTGAA
1 CTATGGCATCGA-TATATGAAGATGTATAAGACCATAGCTGAA
*
118186741 CTATGACATCGA
1 CTATGGCATCGA
118186753 GAAAACGAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.02
42 43 0.96
43 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
CTATGGCATCGATATATGAAGATGTATAAGACCATAGCTGAA
Found at i:118188783 original size:29 final size:29
Alignment explanation
Indices: 118188750--118188808 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
118188740 ATAGAAAAAA
118188750 TTAACTTAATGAATTTAATGACTATTATT
1 TTAACTTAATGAATTTAATGACTATTATT
*
118188779 TTAACTTAATGAATTTAATTACTATTATT
1 TTAACTTAATGAATTTAATGACTATTATT
118188808 T
1 T
118188809 GGTGAGGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (29 bp):
TTAACTTAATGAATTTAATGACTATTATT
Found at i:118200135 original size:2 final size:2
Alignment explanation
Indices: 118200128--118200165 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
118200118 AAATATCCTG
118200128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118200166 GTTAGAACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:118210016 original size:2 final size:2
Alignment explanation
Indices: 118210011--118210040 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
118210001 GTGAAAGTCG
118210011 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
118210041 TCTGAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:118210534 original size:39 final size:39
Alignment explanation
Indices: 118210480--118210595 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
118210470 TTCAGTGATG
118210480 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
*
118210519 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
* * * *
118210558 TATATCCGGACTTAAGGTCCATAGGCTACGTGCTGGAA
1 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAA
118210596 ATATGTCCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
Found at i:118210622 original size:39 final size:39
Alignment explanation
Indices: 118210480--118210632 Score: 119
Period size: 39 Copynumber: 3.9 Consensus size: 39
118210470 TTCAGTGATG
* ** * * *
118210480 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCATAGGCTACGTGCTGGAAA
* ** ** * *
118210519 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCATAGGCTACGTGCTGGAAA
*
118210558 TATATCCGGACTTAAGGTCCATAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCATAGGCTACGTGCTGGAAA
* * * * *
118210597 TATGTCCGGGC-TAAAGTCTCGTAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGTC-CATAGGCTACGTGCTGG
118210633 TATTATACCT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 6 0.06
39 94 0.94
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCATAGGCTACGTGCTGGAAA
Found at i:118210632 original size:78 final size:78
Alignment explanation
Indices: 118210480--118210639 Score: 171
Period size: 78 Copynumber: 2.1 Consensus size: 78
118210470 TTCAGTGATG
* * * * **
118210480 TATATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAATTATATCCAGACTTAGGGTCCGCAGGC
1 TATATCCAGACTTAAGGTCCATAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
*
118210545 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * * *
118210558 TATATCCGGACTTAAGGTCCATAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCTCGTAGG
1 TATATCCAGACTTAAGGTCCATAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTC-CGCAGG
*
118210622 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
118210636 TATA
1 TATA
118210640 CCTGGTTTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 6 0.09
78 61 0.91
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCATAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:118214120 original size:46 final size:45
Alignment explanation
Indices: 118214070--118214245 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
118214060 TGTTTGGGCA
118214070 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
118214116 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
118214163 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
118214209 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
118214246 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:118214225 original size:93 final size:93
Alignment explanation
Indices: 118214066--118214237 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
118214056 AGGATGTTTG
* *
118214066 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
118214131 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
118214159 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
118214224 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
118214238 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:118217236 original size:15 final size:15
Alignment explanation
Indices: 118217197--118217275 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
118217187 GTATCTTGGG
*
118217197 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
118217212 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
118217227 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
118217241 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
118217256 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
118217270 TTTCTT
1 TTTCTT
118217276 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:118217260 original size:29 final size:29
Alignment explanation
Indices: 118217188--118217274 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
118217178 CATAGTATCG
* * * *
118217188 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
118217218 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
118217247 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
118217275 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:118219702 original size:46 final size:45
Alignment explanation
Indices: 118219652--118219827 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
118219642 TGTTTGGGCA
118219652 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
118219698 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
118219745 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
118219791 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
118219828 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:118219759 original size:93 final size:93
Alignment explanation
Indices: 118219648--118219819 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
118219638 AGGATGTTTG
* *
118219648 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
118219713 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
118219741 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
118219806 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
118219820 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:118231773 original size:11 final size:10
Alignment explanation
Indices: 118231750--118231794 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
118231740 CAAATAATTT
118231750 AAATATTAAA
1 AAATATTAAA
118231760 AAATATTAAA
1 AAATATTAAA
118231770 AAA-A-TAAA
1 AAATATTAAA
118231778 AAATATATAAA
1 AAATAT-TAAA
118231789 ACAATA
1 A-AATA
118231795 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.23
9 2 0.06
10 13 0.42
11 5 0.16
12 4 0.13
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATATTAAA
Found at i:118231779 original size:18 final size:18
Alignment explanation
Indices: 118231756--118231810 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
118231746 ATTTAAATAT
118231756 TAAAAAATATTAAAAAAA
1 TAAAAAATATTAAAAAAA
*
118231774 TAAAAAATATATAAAACAA
1 TAAAAAATAT-TAAAAAAA
118231793 T--AAAA-ATTAAAAAAA
1 TAAAAAATATTAAAAAAA
118231808 TAA
1 TAA
118231811 GTAAATGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 8 0.25
16 2 0.06
17 4 0.12
18 10 0.31
19 8 0.25
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAAATATTAAAAAAA
Found at i:118231779 original size:19 final size:19
Alignment explanation
Indices: 118231756--118231798 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
118231746 ATTTAAATAT
118231756 TAAAAAATAT-TAAAAAAA
1 TAAAAAATATATAAAAAAA
*
118231774 TAAAAAATATATAAAACAA
1 TAAAAAATATATAAAAAAA
118231793 TAAAAA
1 TAAAAA
118231799 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAATATATAAAAAAA
Found at i:118231916 original size:18 final size:19
Alignment explanation
Indices: 118231877--118231915 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
118231867 ATATTTTTTA
*
118231877 TTTAAACATTATATTATAT
1 TTTAAACATTATAGTATAT
118231896 TTTAAAC-TTA-AGTATAT
1 TTTAAACATTATAGTATAT
118231913 TTT
1 TTT
118231916 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTAAACATTATAGTATAT
Found at i:118232068 original size:2 final size:2
Alignment explanation
Indices: 118232061--118232108 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
118232051 AATAGCGAGG
118232061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118232103 AT AT AT
1 AT AT AT
118232109 TAATTAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118242608 original size:18 final size:18
Alignment explanation
Indices: 118242585--118242619 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
118242575 TATGCTGATT
118242585 TAACTAATAATA-TAAATC
1 TAACTAA-AATAGTAAATC
118242603 TAACTAAAATAGTAAAT
1 TAACTAAAATAGTAAAT
118242620 AAATCAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (18 bp):
TAACTAAAATAGTAAATC
Found at i:118244392 original size:4 final size:4
Alignment explanation
Indices: 118244383--118244435 Score: 61
Period size: 4 Copynumber: 13.2 Consensus size: 4
118244373 ATGCCTTTGA
* * * * *
118244383 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATGT ATGT ATGT ATGT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
118244431 ATAT A
1 ATAT A
118244436 AATTATAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:118251106 original size:1 final size:1
Alignment explanation
Indices: 118251100--118251124 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
118251090 CAAGGTCTGG
118251100 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
118251125 GGTTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:118253997 original size:44 final size:45
Alignment explanation
Indices: 118253940--118254053 Score: 187
Period size: 45 Copynumber: 2.6 Consensus size: 45
118253930 CCTTCACCCT
*
118253940 CAACTGGTTCATCATCAGCACCCCCA-CCCCACCACCGCCAC-CAA
1 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTC-A
*
118253984 CTACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
1 CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
118254029 CAACTGGTTCATCATCAGCACCCCC
1 CAACTGGTTCATCATCAGCACCCCC
118254054 GCCACCCCCT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
44 25 0.38
45 39 0.60
46 1 0.02
ACGTcount: A:0.25, C:0.52, G:0.09, T:0.15
Consensus pattern (45 bp):
CAACTGGTTCATCATCAGCACCCCCACCCCCACCACCCCCACTCA
Found at i:118255649 original size:20 final size:22
Alignment explanation
Indices: 118255605--118255649 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
118255595 TCTTAATTAG
*
118255605 AATCTCTAAAAATATCTGTTGT
1 AATCTCTAAAAATATCTATTGT
*
118255627 AATCTCTAAATATA-CTATT-T
1 AATCTCTAAAAATATCTATTGT
118255647 AAT
1 AAT
118255650 AATATCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 4 0.19
22 13 0.62
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (22 bp):
AATCTCTAAAAATATCTATTGT
Found at i:118257420 original size:17 final size:18
Alignment explanation
Indices: 118257383--118257420 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
118257373 GTCTTCTCTT
*
118257383 GAACCAAATTCTTAGCTA
1 GAACCAAATTCTCAGCTA
*
118257401 GAACTAAATTCTCA-CTA
1 GAACCAAATTCTCAGCTA
118257418 GAA
1 GAA
118257421 AGAGTAACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (18 bp):
GAACCAAATTCTCAGCTA
Found at i:118258926 original size:24 final size:24
Alignment explanation
Indices: 118258894--118258942 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
118258884 GTCACAGAGT
118258894 ATAACAAATTTGCC-AGAGGCCGAG
1 ATAACAAATTTGCCTA-AGGCCGAG
118258918 ATAACAAATTTGCCTAAGGCCGAG
1 ATAACAAATTTGCCTAAGGCCGAG
118258942 A
1 A
118258943 ATTACCCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (24 bp):
ATAACAAATTTGCCTAAGGCCGAG
Found at i:118263569 original size:16 final size:15
Alignment explanation
Indices: 118263548--118263594 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
118263538 TTTAATAGGG
118263548 TAATTTTATATTTTTA
1 TAATTTTA-ATTTTTA
*
118263564 TAATTTTAAATTTTGA
1 TAATTTT-AATTTTTA
*
118263580 -AATTTCAATTTTTA
1 TAATTTTAATTTTTA
118263594 T
1 T
118263595 GTGATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 13 0.50
17 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TAATTTTAATTTTTA
Found at i:118264205 original size:15 final size:15
Alignment explanation
Indices: 118264185--118264216 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
118264175 ATAAGGGTTA
118264185 AACGAGAATTCCTCC
1 AACGAGAATTCCTCC
118264200 AACGAGAATTCCTCC
1 AACGAGAATTCCTCC
118264215 AA
1 AA
118264217 AAAGGAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (15 bp):
AACGAGAATTCCTCC
Found at i:118264300 original size:31 final size:31
Alignment explanation
Indices: 118264263--118264322 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
118264253 TACAGAGATA
118264263 AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
1 AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
118264294 AAAAAGAATCAGGTCAAAGTAATTAAAGA
1 AAAAAGAATCAGGTCAAAGTAATTAAAGA
118264323 TTTAAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (31 bp):
AAAAAGAATCAGGTCAAAGTAATTAAAGAGT
Found at i:118268329 original size:4 final size:4
Alignment explanation
Indices: 118268320--118268353 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
118268310 GATTCTGACT
*
118268320 CTGC CTGC CTGC CTGT CTGC CTGC CTGC CTGC CT
1 CTGC CTGC CTGC CTGC CTGC CTGC CTGC CTGC CT
118268354 AGCCCCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (4 bp):
CTGC
Found at i:118285257 original size:49 final size:49
Alignment explanation
Indices: 118285185--118285285 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
118285175 CAGTGCTGTA
118285185 TTCTAATAACAACATGAGTTCATCTAAGTCAAAGCATATTGACATAAAG
1 TTCTAATAACAACATGAGTTCATCTAAGTCAAAGCATATTGACATAAAG
118285234 TTCTAATAACAACATGAGTTCATCTAAGTCAAAGCATATTGACATAAAG
1 TTCTAATAACAACATGAGTTCATCTAAGTCAAAGCATATTGACATAAAG
118285283 TTC
1 TTC
118285286 CTAGTTGTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (49 bp):
TTCTAATAACAACATGAGTTCATCTAAGTCAAAGCATATTGACATAAAG
Found at i:118287376 original size:30 final size:30
Alignment explanation
Indices: 118287335--118287395 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
118287325 AGTTATGAAA
*
118287335 TGGTGGTTGAACAATTTGAAAAGTTTTTAT
1 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
118287365 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
1 TGGTAGTTGAACAATTTGAAAAGTTTTTAT
118287395 T
1 T
118287396 TAAGTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (30 bp):
TGGTAGTTGAACAATTTGAAAAGTTTTTAT
Found at i:118290041 original size:47 final size:47
Alignment explanation
Indices: 118289977--118290087 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
118289967 GACATTGAGT
*
118289977 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
118290024 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
118290071 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
118290088 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:118291390 original size:6 final size:7
Alignment explanation
Indices: 118291375--118291399 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
118291365 ACAATATGGA
118291375 TTTTCTT
1 TTTTCTT
118291382 TTTTCTT
1 TTTTCTT
118291389 TTTTCTT
1 TTTTCTT
118291396 TTTT
1 TTTT
118291400 GATTAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:118291618 original size:21 final size:21
Alignment explanation
Indices: 118291592--118291632 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118291582 TATTTATTTT
118291592 AAATTAATAAA-AATTGAAATG
1 AAATTAA-AAATAATTGAAATG
*
118291613 AAATTAAAAATAATTTAAAT
1 AAATTAAAAATAATTGAAAT
118291633 TTAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AAATTAAAAATAATTGAAATG
Found at i:118292304 original size:22 final size:22
Alignment explanation
Indices: 118292276--118292323 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
118292266 AATGATATTT
* *
118292276 TTATTTAAATAATATT-ATTTTA
1 TTATTTAAA-AAAATTAAGTTTA
118292298 TTATTTAAAAAAATTAAGTTTA
1 TTATTTAAAAAAATTAAGTTTA
118292320 TTAT
1 TTAT
118292324 GTCAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATTTAAAAAAATTAAGTTTA
Found at i:118292737 original size:29 final size:27
Alignment explanation
Indices: 118292684--118292756 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 27
118292674 CTTAAATTAA
* *
118292684 AAAAAAAATTT-AATCATGAATTGAACC
1 AAAAAAATTTTAAATCATGAACTGAA-C
*
118292711 AAAAAAATTTTAAATACATTAACTGAAC
1 AAAAAAATTTTAAAT-CATGAACTGAAC
* * *
118292739 TAAAATATTTTAATTCAT
1 AAAAAAATTTTAAATCAT
118292757 TCAATCGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 13 0.34
28 16 0.42
29 9 0.24
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (27 bp):
AAAAAAATTTTAAATCATGAACTGAAC
Found at i:118292950 original size:19 final size:20
Alignment explanation
Indices: 118292926--118292965 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
118292916 TAATAGTTCA
*
118292926 AAAAATATATT-TCTAATAT
1 AAAAATATATTATATAATAT
118292945 AAAAATATATTATATAATAT
1 AAAAATATATTATATAATAT
118292965 A
1 A
118292966 TATTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATATATTATATAATAT
Found at i:118294253 original size:36 final size:35
Alignment explanation
Indices: 118294211--118294278 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
118294201 ACAAAAAGAA
118294211 AATCTAATCTAAAAAAGAAAAAGAAAAAGAAAACTT
1 AATCTAATCTAAAAAAGAAAAA-AAAAAGAAAACTT
* * *
118294247 AATCTAATTTAAAAATGAAAAAAAAAGGAAAA
1 AATCTAATCTAAAAAAGAAAAAAAAAAGAAAA
118294279 GAAAATCCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (35 bp):
AATCTAATCTAAAAAAGAAAAAAAAAAGAAAACTT
Found at i:118294296 original size:36 final size:35
Alignment explanation
Indices: 118294204--118294296 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 35
118294194 TGAAACAACA
118294204 AAAAGAAAATCTAATCTAAAAAAGAAAAAGAAAAAG
1 AAAAGAAAATCTAA-CTAAAAAAGAAAAAGAAAAAG
*** * * *
118294240 AAAACTTAATCTAATTTAAAAATGAAAAA-AAAAGG
1 AAAAGAAAATCTAA-CTAAAAAAGAAAAAGAAAAAG
118294275 AAAAGAAAATCCTAACATAAAA
1 AAAAGAAAAT-CTAAC-TAAAA
118294297 CTATGAAACT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
35 12 0.27
36 33 0.73
ACGTcount: A:0.68, C:0.08, G:0.09, T:0.16
Consensus pattern (35 bp):
AAAAGAAAATCTAACTAAAAAAGAAAAAGAAAAAG
Found at i:118297239 original size:13 final size:13
Alignment explanation
Indices: 118297221--118297251 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
118297211 ATCGATTGAG
*
118297221 TATTAATTTAATT
1 TATTAACTTAATT
118297234 TATTAACTTAATT
1 TATTAACTTAATT
118297247 TATTA
1 TATTA
118297252 TTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTAACTTAATT
Found at i:118299470 original size:54 final size:54
Alignment explanation
Indices: 118299383--118299490 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
118299373 GAAGATTGGA
* *
118299383 CGCTATGTTGTTGTCACTCTTATTTTATTAATTTTCATCATGTCTTACTAGGTT
1 CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
*
118299437 CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTGCTAGGTT
1 CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
118299491 TTGTGTTATG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.51
Consensus pattern (54 bp):
CGCTATGTTGTTATCACTCTTATTTTATCAATTTTCATCATGTCTTACTAGGTT
Found at i:118299738 original size:19 final size:18
Alignment explanation
Indices: 118299698--118299739 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
118299688 AAGTATATTT
118299698 TATT-TATAAATTTAAAA
1 TATTATATAAATTTAAAA
* *
118299715 AATTATATATAATTTTAAA
1 TATTATATA-AATTTAAAA
118299734 TATTAT
1 TATTAT
118299740 GTTATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 4 0.20
19 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTATATAAATTTAAAA
Found at i:118299786 original size:19 final size:20
Alignment explanation
Indices: 118299741--118299786 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
118299731 AAATATTATG
*
118299741 TTATT-AAATATAAATATAA
1 TTATTAAAATATAAATAAAA
*
118299760 TTA-GAAAATAT-AATAAAA
1 TTATTAAAATATAAATAAAA
118299778 TTATTAAAA
1 TTATTAAAA
118299787 AATTGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TTATTAAAATATAAATAAAA
Found at i:118300549 original size:17 final size:18
Alignment explanation
Indices: 118300529--118300562 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
118300519 ATTAGATTAA
118300529 AAAATATATTT-TTTATT
1 AAAATATATTTATTTATT
*
118300546 AAAATTTATTTATTTAT
1 AAAATATATTTATTTAT
118300563 ATTGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAATATATTTATTTATT
Found at i:118300582 original size:40 final size:44
Alignment explanation
Indices: 118300503--118300582 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
118300493 AGAAATGAAT
*
118300503 AAATTAATTTATTTATATTAGATTAAAAAATATATTTTTTATTA
1 AAATTAATTTATTTATATTAGATTAAAAAATATAATTTTTATTA
*
118300547 AAATTTATTTATTTATATT-GA-T-AAAAAT-TAATTTTT
1 AAATTAATTTATTTATATTAGATTAAAAAATATAATTTTT
118300583 GTATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 7 0.21
41 6 0.18
42 1 0.03
43 2 0.06
44 18 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (44 bp):
AAATTAATTTATTTATATTAGATTAAAAAATATAATTTTTATTA
Found at i:118301725 original size:2 final size:2
Alignment explanation
Indices: 118301718--118301757 Score: 62
Period size: 2 Copynumber: 19.0 Consensus size: 2
118301708 ACTATTTATC
118301718 AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT GAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT
118301758 TAGCTACGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 32 0.89
3 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:118306631 original size:21 final size:22
Alignment explanation
Indices: 118306607--118306653 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
118306597 CTGCATTTGG
*
118306607 AAATT-TCCTGATTTATACAGA
1 AAATTGTCCAGATTTATACAGA
*
118306628 AAATTGTGCAGATTTATACAGA
1 AAATTGTCCAGATTTATACAGA
118306650 AAAT
1 AAAT
118306654 AAGAAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (22 bp):
AAATTGTCCAGATTTATACAGA
Found at i:118307269 original size:3 final size:3
Alignment explanation
Indices: 118307217--118307250 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
118307207 ATGCAGGAAA
118307217 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
118307251 TAATGATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:118310798 original size:17 final size:17
Alignment explanation
Indices: 118310744--118310803 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 17
118310734 TTATAATTTT
* *
118310744 TAAATTAAAATACCAAC
1 TAAATTTAAATACCAAA
* **
118310761 TAAA-TTAAAAAAAAAA
1 TAAATTTAAATACCAAA
*
118310777 GAAATTTAAATACCAAA
1 TAAATTTAAATACCAAA
*
118310794 TAAATATAAA
1 TAAATTTAAA
118310804 AGGTTGGAAT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
16 10 0.32
17 21 0.68
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (17 bp):
TAAATTTAAATACCAAA
Found at i:118311959 original size:23 final size:22
Alignment explanation
Indices: 118311927--118311987 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
118311917 ATTCTTTTTC
*
118311927 TTTTTGTATATTTGATTCTCTAT
1 TTTTTATATATTTGATTCTCT-T
118311950 TTTTTATATATGTT-ATTCTCTT
1 TTTTTATATAT-TTGATTCTCTT
*
118311972 TATTTTCTCATATTTG
1 T-TTTTAT-ATATTTG
118311988 TTTATCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 24 0.75
24 6 0.19
ACGTcount: A:0.18, C:0.10, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTTTATATATTTGATTCTCTT
Found at i:118311985 original size:47 final size:46
Alignment explanation
Indices: 118311896--118311987 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 46
118311886 AAATGGAAAA
* * *
118311896 TCTCTATTTTCCTTATTTGTTATTCTTTTTCTTTTTGTATATTTGAT
1 TCTCTATTTT-CTTATTTGTTATTCTCTTTATTTTTGCATATTTGAT
118311943 TCTCTATTTT-TTATATATGTTATTCTCTTTATTTTCT-CATATTTG
1 TCTCTATTTTCTTAT-T-TGTTATTCTCTTTATTTT-TGCATATTTG
118311988 TTTATCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 4 0.10
46 1 0.03
47 33 0.85
48 1 0.03
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.66
Consensus pattern (46 bp):
TCTCTATTTTCTTATTTGTTATTCTCTTTATTTTTGCATATTTGAT
Found at i:118327181 original size:24 final size:24
Alignment explanation
Indices: 118327149--118327198 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
118327139 GACGTCGAAA
118327149 TAGGCTTATGAGGCATTACCGGAC
1 TAGGCTTATGAGGCATTACCGGAC
*
118327173 TAGGGTTATGAGGCATTACCGGAC
1 TAGGCTTATGAGGCATTACCGGAC
118327197 TA
1 TA
118327199 TACATCTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (24 bp):
TAGGCTTATGAGGCATTACCGGAC
Found at i:118328537 original size:47 final size:47
Alignment explanation
Indices: 118328481--118328608 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
118328471 AATCGATAAG
* * **
118328481 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCGGAA
1 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCACAAAA
* * * *
118328528 TGCCTATACCATGGCCCGTAGCCAAATCAAGATAACTCCTCACAAAA
1 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCACAAAA
* *
118328575 TACCTATATCATGG-CTCGTATCCAAATCAAGGTA
1 TACCTATACCATGGCCT-GTAGCCAAATCAAGGTA
118328609 TTATTCGCAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 1 0.01
47 66 0.99
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCACAAAA
Found at i:118342626 original size:43 final size:43
Alignment explanation
Indices: 118342577--118342700 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
118342567 AGATGAAATT
* *
118342577 ACATGTAAGACCATGTCTGGGACTTTGGCATCGTTAT-ATGATT
1 ACATGTAAGACCATGTCTGGGACTTTGGCATCGATATGA-GATA
* *
118342620 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATA
1 ACATGTAAGACCATGTCTGGGACTTTGGCATCGATATGAGATA
* * *
118342663 ACATGTAAGACCATATCTGGGA-TATGGCATTG-TATGAG
1 ACATGTAAGACCATGTCTGGGACTTTGGCATCGATATGAG
118342701 CTTTATGTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
41 6 0.08
42 7 0.10
43 57 0.80
44 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTGGGACTTTGGCATCGATATGAGATA
Found at i:118343169 original size:33 final size:33
Alignment explanation
Indices: 118343126--118343217 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
118343116 TAAGTTGCTG
* *
118343126 AATAAAACCATAGCTGGGCTATGGTAATCGAAT
1 AATAAGACCATAGCTGGGCTATGGCAATCGAAT
*** *
118343159 AATAAGACCATAGCTTAACTATGGCAATCGACT
1 AATAAGACCATAGCTGGGCTATGGCAATCGAAT
* * *
118343192 AAAAAGACCATAACTGGGTTATGGCA
1 AATAAGACCATAGCTGGGCTATGGCA
118343218 TGTGAAAGAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (33 bp):
AATAAGACCATAGCTGGGCTATGGCAATCGAAT
Found at i:118344139 original size:12 final size:12
Alignment explanation
Indices: 118344122--118344151 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
118344112 AATGGTCACT
*
118344122 TTTGGTTGTTTA
1 TTTGGTTGTATA
118344134 TTTGGTTGTATA
1 TTTGGTTGTATA
118344146 TTTGGT
1 TTTGGT
118344152 ACCATTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (12 bp):
TTTGGTTGTATA
Found at i:118345726 original size:40 final size:40
Alignment explanation
Indices: 118345676--118345756 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
118345666 AAGTCAGGAC
* *
118345676 TAAACTGAGTACTCAAAGAATTTTTCGGAAAACATGAAAA
1 TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGAAAA
*
118345716 TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGGAAA
1 TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGAAAA
118345756 T
1 T
118345757 TTTTCAAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.25
Consensus pattern (40 bp):
TAAACCGAGTACTCAAAGAATTTTTCGAAAAACATGAAAA
Found at i:118346877 original size:2 final size:2
Alignment explanation
Indices: 118346870--118346902 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
118346860 ATTTCAAAGA
118346870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118346903 AAATAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118346967 original size:28 final size:26
Alignment explanation
Indices: 118346894--118346980 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
118346884 ATATATATAT
* *
118346894 ATATATATAAAATAAATTTAGAAGAAA
1 ATATATATTAAAT-AATTTAAAAGAAA
* *
118346921 ATATTTACATAACA-AATTTGAAAAGAAA
1 ATATATA-TTAA-ATAATTT-AAAAGAAA
118346949 ATATATATTAAATAGATTTAAAAGAAA
1 ATATATATTAAATA-ATTTAAAAGAAA
*
118346976 CTATA
1 ATATA
118346981 CAAATAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
26 1 0.02
27 27 0.56
28 19 0.40
29 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (26 bp):
ATATATATTAAATAATTTAAAAGAAA
Found at i:118347278 original size:67 final size:63
Alignment explanation
Indices: 118347140--118347278 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 63
118347130 TATACTTTAC
* * *
118347140 AATTTAAACAAATAAATAACAAAGTAAAAAAAAAAGCAACTCAAAATATATGTTTTAAAAAAA
1 AATTAAAAGAAATAAATAACAAAGTAAAAAAAAAAGCAACCCAAAATATATGTTTTAAAAAAA
* * *
118347203 ATTTAAAAGAAATAAATAACAAAGTAAAAAAAATTAAAGTAACCCAAAATGTATGTTCTTAAAAA
1 AATTAAAAGAAATAAATAACAAAGT-AAAAAAA--AAAGCAACCCAAAATATATGTT-TTAAAAA
118347268 AA
62 AA
118347270 AATTAAAAG
1 AATTAAAAG
118347279 TTGAGTGCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 22 0.34
64 7 0.11
66 19 0.29
67 17 0.26
ACGTcount: A:0.63, C:0.07, G:0.06, T:0.23
Consensus pattern (63 bp):
AATTAAAAGAAATAAATAACAAAGTAAAAAAAAAAGCAACCCAAAATATATGTTTTAAAAAAA
Found at i:118348853 original size:177 final size:177
Alignment explanation
Indices: 118348560--118349172 Score: 881
Period size: 177 Copynumber: 3.5 Consensus size: 177
118348550 ATGGCTAAAA
* * * * *
118348560 ATCTGCTCCTATTGCCGATACAT-GACAATAAGATCTATAATTTTCAGTCTGCTTCCTTACTACC
1 ATCTGCTCC-ATAGCCGATACATGGA-GATAAGATCTATAATTTTCAGTCTGCTTCC-TGCAACT
* * * * *
118348624 TCAGGAAGATAAGACCTGTAACTTTAACCTGCTC-CACTGC-AACTTCAGAGAGATAAGGCTGGT
63 TCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC-TTGCTACCTT-AGAGAGATAAGGCTGGT
* *
118348687 GGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
126 GGCTAAAATATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
* * * * *
118348739 ATCTGCTCCATAGCCGGTACATGGAGATAAGATCTGTAATTTTCAGTCTGTTTCTTGCAACTTTA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGCAACTTCA
118348804 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTA
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTA
* * *
118348869 AAATATGCTCCATAGTCGATACATGGAGATAAGATTTGCCATTTTCG
131 AAATATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
* * * *
118348916 ATCTCCTTCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGTAACTTTA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGCAACTTCA
* *
118348981 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGGTGGCTA
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTA
*
118349046 AAATATGCTCCATAGCCTATACATGGAGATAAGACTCGCCATTTTCG
131 AAATATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
* * *
118349093 ATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACGTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGCAACTTCA
*
118349158 AGAAGATAAGACTTG
66 GGAAGATAAGACTTG
118349173 CATATTGAGC
Statistics
Matches: 390, Mismatches: 41, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
177 337 0.86
178 42 0.11
179 11 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (177 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGCAACTTCA
GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTA
AAATATGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
Found at i:118349135 original size:45 final size:45
Alignment explanation
Indices: 118349051--118349144 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
118349041 GGCTAAAATA
* *
118349051 TGCTCCATAGCCTATACATGGAGATAAGACTCGCCATTTTC-GATC
1 TGCTCCATAGCCGATACATGGAGATAAGACTCGCAATTTTCAG-TC
* *
118349096 TGCTCCATAGCCGATATATGGAGATAAGA-TCTGTAATTTTCAGTC
1 TGCTCCATAGCCGATACATGGAGATAAGACTC-GCAATTTTCAGTC
118349141 TGCT
1 TGCT
118349145 TCCTGCAACG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 2 0.05
45 40 0.93
46 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
TGCTCCATAGCCGATACATGGAGATAAGACTCGCAATTTTCAGTC
Found at i:118349272 original size:354 final size:354
Alignment explanation
Indices: 118348573--118349273 Score: 896
Period size: 354 Copynumber: 2.0 Consensus size: 354
118348563 TGCTCCTATT
118348573 GCCGATACATGACAATAAGATCTATAATTTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGA
1 GCCGATACATGACAATAAGATCTATAATTTTCAGTCTGCTTCCTTAC-ACCTCAGGAAGATAAGA
* * * *
118348638 CCTGTAACTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCC
65 CCTGTAACTTCAACCTGCTCCACTGCAACCTCAGAAAGATAAGGCTGGTGGCTAAAATATACTCC
*
118348703 ATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGGTACATGGAGATA
130 ATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATA
* * * * * * *
118348768 AGATCTGTAATTTTCAGTCTGTTTCTTGCAACTTTAGGAAGATAAGACTTGTATCTTCAACCTGC
195 AGATCTGTAATTTTCAGTCTGCTTCCTGCAACGTCAAGAAGATAAGACTTGCATATTCAACCTGC
* * * ** * * *
118348833 TCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATATGCTCCATAGTCGATACATGGAGA
260 TCTCCTGCTAACTTAGAGAGATAAGGCTGATCACTAAAACATGCTCCATAGTCAATACAGGGAGA
* *
118348898 TAAGATTTGCCATTTTCGATCTCCTTCATA
325 TAAGATTTGACATCTTCGATCTCCTTCATA
* * *
118348928 GCCGATACATGGA-GATAAGATCTATAATTTTCAGTCTGCTTCCTGTA-ACTTTAGGAAGATAAG
1 GCCGATACAT-GACAATAAGATCTATAATTTTCAGTCTGCTTCCT-TACACCTCAGGAAGATAAG
* * * * *
118348991 ACTTGTATCTTCAACCTGCTCTC-TTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAATATGCT
64 ACCTGTAACTTCAACCTGCTC-CACTGCAACCTCAGAAAGATAAGGCTGGTGGCTAAAATATACT
* *
118349055 CCATAGCCTATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATATATGGAGA
128 CCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGA
* *
118349120 TAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACGTCAAGAAGATAAGACTTGCATATTGAGCCT
193 TAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACGTCAAGAAGATAAGACTTGCATATTCAACCT
* ** * * *
118349185 GCTC-CACTGC-AACTTCAGAGAGATAAGGCTTATCACTTCAACCTGCTTCACT-G-CAACTTCA
258 GCTCTC-CTGCTAACTT-AGAGAGATAAGGCTGATCACTAAAACATGCTCCA-TAGTCAA-TACA
*
118349246 GGGAGATAAGGTTTGTAC-TCTTCGATCT
319 GGGAGATAAGATTTG-ACATCTTCGATCT
118349274 ATTCCGCTGC
Statistics
Matches: 297, Mismatches: 41, Indels: 17
0.84 0.12 0.05
Matches are distributed among these distances:
353 7 0.02
354 243 0.82
355 43 0.14
356 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (354 bp):
GCCGATACATGACAATAAGATCTATAATTTTCAGTCTGCTTCCTTACACCTCAGGAAGATAAGAC
CTGTAACTTCAACCTGCTCCACTGCAACCTCAGAAAGATAAGGCTGGTGGCTAAAATATACTCCA
TAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAA
GATCTGTAATTTTCAGTCTGCTTCCTGCAACGTCAAGAAGATAAGACTTGCATATTCAACCTGCT
CTCCTGCTAACTTAGAGAGATAAGGCTGATCACTAAAACATGCTCCATAGTCAATACAGGGAGAT
AAGATTTGACATCTTCGATCTCCTTCATA
Found at i:118361422 original size:2 final size:2
Alignment explanation
Indices: 118361415--118361447 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
118361405 ATTTTAAAGA
118361415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118361448 AAATAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118361510 original size:28 final size:27
Alignment explanation
Indices: 118361439--118361525 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
118361429 ATATATATAT
* *
118361439 ATATATATAAAATAAATTTAGAAGAAA
1 ATATATATAAAATAGATTTAAAAGAAA
* * * *
118361466 ATATTTACATAACAGATTTGAAAAGAAA
1 ATATATATAAAATAGATTT-AAAAGAAA
*
118361494 ATATATATTAAATAGATTTAAAAGAAA
1 ATATATATAAAATAGATTTAAAAGAAA
*
118361521 CTATA
1 ATATA
118361526 CAAATAAGAT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 26 0.55
28 21 0.45
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (27 bp):
ATATATATAAAATAGATTTAAAAGAAA
Found at i:118361816 original size:66 final size:64
Alignment explanation
Indices: 118361685--118361817 Score: 194
Period size: 65 Copynumber: 2.0 Consensus size: 64
118361675 TATACTTTAC
*
118361685 AATTTAAACAAATAAATAACAAAGTAAAAAAAAAAAAGCAACTCAAAATATATGTTTTAAAAAA
1 AATTTAAACAAATAAATAACAAAGTAAAAAAAAAAAAGCAACCCAAAATATATGTTTTAAAAAA
* * * *
118361749 AATTTAAAAGAAATAAATAACAAAGTAAAAAAAATTAAAGTAACCCAAAATGTATGTTCTTAAAA
1 AATTT-AAACAAATAAATAACAAAGTAAAAAAAA-AAAAGCAACCCAAAATATATGTT-TTAAAA
118361814 AA
63 AA
118361816 AA
1 AA
118361818 AATTTAAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
64 5 0.08
65 27 0.44
66 19 0.31
67 10 0.16
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (64 bp):
AATTTAAACAAATAAATAACAAAGTAAAAAAAAAAAAGCAACCCAAAATATATGTTTTAAAAAA
Found at i:118365997 original size:24 final size:25
Alignment explanation
Indices: 118365969--118366061 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
118365959 GAAACTTATA
118365969 AGAGCCA-TAATCGGGAAGTTCAAG
1 AGAGCCAGTAATCGGGAAGTTCAAG
* * * * **
118365993 CGAGCCAAT-ATTGGGAAGATCCGG
1 AGAGCCAGTAATCGGGAAGTTCAAG
* *
118366017 AGAGCCATTAATCGGGAAGCTCATA-
1 AGAGCCAGTAATCGGGAAGTTCA-AG
*
118366042 AGAGCCAGTTATCGGGAAGT
1 AGAGCCAGTAATCGGGAAGT
118366062 CTGAAGAGCC
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
24 24 0.46
25 28 0.54
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (25 bp):
AGAGCCAGTAATCGGGAAGTTCAAG
Found at i:118366035 original size:25 final size:23
Alignment explanation
Indices: 118365968--118366084 Score: 92
Period size: 24 Copynumber: 4.8 Consensus size: 23
118365958 GGAAACTTAT
*
118365968 AAGAGCCATAATCGGGAAGTTCA-
1 AAGAGCCATTATCGGGAAG-TCAG
* * * *
118365991 AGCGAGCCAATATTGGGAAGATCCG
1 A-AGAGCCATTATCGGGAAG-TCAG
* *
118366016 GAGAGCCATTAATCGGGAAGCTCAT
1 AAGAGCCATT-ATCGGGAAG-TCAG
*
118366041 AAGAGCCAGTTATCGGGAAGTCTG
1 AAGAGCCA-TTATCGGGAAGTCAG
118366065 AAGAGCCAATTATCGGGAAG
1 AAGAGCC-ATTATCGGGAAG
118366085 CTCGTAAGAG
Statistics
Matches: 73, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
23 1 0.01
24 43 0.59
25 27 0.37
26 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (23 bp):
AAGAGCCATTATCGGGAAGTCAG
Found at i:118366047 original size:49 final size:49
Alignment explanation
Indices: 118365968--118366095 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
118365958 GGAAACTTAT
* * *
118365968 AAGAGCCA-TAATCGGGAAGTTCA-AGCGAGCCA-ATATTGGGAAGATCCG
1 AAGAGCCATTAATCGGGAAGCTCATA-AGAGCCAGATATCGGGAAG-TCCG
* * *
118366016 GAGAGCCATTAATCGGGAAGCTCATAAGAGCCAGTTATCGGGAAGTCTG
1 AAGAGCCATTAATCGGGAAGCTCATAAGAGCCAGATATCGGGAAGTCCG
*
118366065 AAGAGCCAATT-ATCGGGAAGCTCGTAAGAGC
1 AAGAGCC-ATTAATCGGGAAGCTCATAAGAGC
118366096 TAAGAGAGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 7 0.10
49 48 0.71
50 13 0.19
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.18
Consensus pattern (49 bp):
AAGAGCCATTAATCGGGAAGCTCATAAGAGCCAGATATCGGGAAGTCCG
Found at i:118366071 original size:73 final size:73
Alignment explanation
Indices: 118365945--118366084 Score: 178
Period size: 73 Copynumber: 1.9 Consensus size: 73
118365935 TAGCTCTTTT
* *
118365945 GAGCCATGTAATGGGAAACTTATAAGAGCCATAATCGGGAAGTTCAAGCGAGCCAA-TATTGGGA
1 GAGCCATGTAATGGGAAACTCATAAGAGCCATAATCGGGAAGTTCAA-CGAGCCAATTATCGGGA
118366009 AGATCCGGA
65 AGATCCGGA
* * *
118366018 GAGCCAT-TAATCGGGAAGCTCATAAGAGCCAGTTATCGGGAAGTCTGAA-GAGCCAATTATCGG
1 GAGCCATGTAAT-GGGAAACTCATAAGAGCCA-TAATCGGGAAGT-TCAACGAGCCAATTATCGG
118366081 GAAG
63 GAAG
118366085 CTCGTAAGAG
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
72 4 0.07
73 31 0.53
74 20 0.34
75 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (73 bp):
GAGCCATGTAATGGGAAACTCATAAGAGCCATAATCGGGAAGTTCAACGAGCCAATTATCGGGAA
GATCCGGA
Found at i:118366542 original size:21 final size:21
Alignment explanation
Indices: 118366518--118366557 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
118366508 AATTTAACAT
*
118366518 CAATTTAATACAATTCATACC
1 CAATTCAATACAATTCATACC
*
118366539 CAATTCAATCCAATTCATA
1 CAATTCAATACAATTCATA
118366558 TTTTAGCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (21 bp):
CAATTCAATACAATTCATACC
Found at i:118366935 original size:28 final size:28
Alignment explanation
Indices: 118366903--118366956 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
118366893 TCCCCGAGAT
118366903 AGCTAGATTAAGCTATTACGACATCAAA
1 AGCTAGATTAAGCTATTACGACATCAAA
118366931 AGCTAGATTAAGCTATTACGACATCA
1 AGCTAGATTAAGCTATTACGACATCA
118366957 GAAATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (28 bp):
AGCTAGATTAAGCTATTACGACATCAAA
Found at i:118377282 original size:3 final size:3
Alignment explanation
Indices: 118377274--118377311 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
118377264 CAAGCTAGTC
118377274 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
118377312 GATAGTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:118377572 original size:30 final size:30
Alignment explanation
Indices: 118377538--118377600 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
118377528 TCCTAGAAAA
*
118377538 CAAAAATTGAGGATTTACAAAGAATTTCTC
1 CAAAAATTGAGGATTCACAAAGAATTTCTC
118377568 CAAAAATTGAGGATTCACAAAGAATTTCTC
1 CAAAAATTGAGGATTCACAAAGAATTTCTC
118377598 CAA
1 CAA
118377601 GGTACTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (30 bp):
CAAAAATTGAGGATTCACAAAGAATTTCTC
Found at i:118378272 original size:18 final size:19
Alignment explanation
Indices: 118378249--118378285 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
118378239 ATTTGATTAA
118378249 AAATACTTT-TAATTTTTG
1 AAATACTTTCTAATTTTTG
118378267 AAATACTTTGCTAATTTTT
1 AAATACTTT-CTAATTTTT
118378286 ATTTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (19 bp):
AAATACTTTCTAATTTTTG
Found at i:118378474 original size:21 final size:19
Alignment explanation
Indices: 118378431--118378483 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
118378421 AAAAAAGTAA
**
118378431 TTTTATAATTTTTATGGTTTT
1 TTTTATAATTTTTATGG--AC
118378452 TTTTATAATTTTTGA-GGAC
1 TTTTATAATTTTT-ATGGAC
118378471 TTTTATAATTTTT
1 TTTTATAATTTTT
118378484 TTTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.45
21 15 0.52
22 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTATGGAC
Found at i:118378681 original size:12 final size:11
Alignment explanation
Indices: 118378648--118378715 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
118378638 ATTTTTATAT
118378648 TTTTTAAATAA
1 TTTTTAAATAA
*
118378659 ATTTT-AA-AA
1 TTTTTAAATAA
118378668 TTTTCTAAATAA
1 TTTT-TAAATAA
* *
118378680 TTTTTTACT-A
1 TTTTTAAATAA
118378690 TTTTT--ATAA
1 TTTTTAAATAA
118378699 -TTTTAAATAA
1 TTTTTAAATAA
118378709 TTTTTAA
1 TTTTTAA
118378716 TGATTTTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
8 5 0.11
9 6 0.13
10 13 0.29
11 15 0.33
12 6 0.13
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTTAAATAA
Found at i:118378723 original size:10 final size:10
Alignment explanation
Indices: 118378638--118378723 Score: 63
Period size: 10 Copynumber: 8.6 Consensus size: 10
118378628 TTCTTTGTAT
118378638 ATTTTT-ATA
1 ATTTTTAATA
*
118378647 TTTTTTAAATA
1 ATTTTT-AATA
*
118378658 AATTTTAA-A
1 ATTTTTAATA
118378667 ATTTTCTAAATA
1 ATTTT-T-AATA
*
118378679 ATTTTTTACT-
1 A-TTTTTAATA
118378689 ATTTTT-ATA
1 ATTTTTAATA
*
118378698 ATTTTAAATA
1 ATTTTTAATA
*
118378708 ATTTTTAATG
1 ATTTTTAATA
118378718 ATTTTT
1 ATTTTT
118378724 TGACCGTGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
8 1 0.02
9 20 0.33
10 21 0.35
11 11 0.18
12 3 0.05
13 4 0.07
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:118379711 original size:19 final size:19
Alignment explanation
Indices: 118379677--118379739 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
118379667 TAAAAACTTG
118379677 TAAAA-ATTATAAAGAATT
1 TAAAATATTATAAAGAATT
*
118379695 TAAAATTTTCA-AAAGAATT
1 TAAAATATT-ATAAAGAATT
118379714 GTAAAA-ATTATAAAGAATT
1 -TAAAATATTATAAAGAATT
118379733 TAAAATA
1 TAAAATA
118379740 AAAATTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 11 0.29
19 21 0.55
20 6 0.16
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (19 bp):
TAAAATATTATAAAGAATT
Done.