Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 186 of 335
Found at i:56035078 original size:26 final size:26
Alignment explanation
Indices: 56035029--56035078 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
56035019 CCAACACACC
* *
56035029 AATATTGTAGCAAAGCTGCTAGTAAT
1 AATATTGTAGCAAAGCTACCAGTAAT
56035055 AATATTGTAGCAAAGCTACCAGTA
1 AATATTGTAGCAAAGCTACCAGTA
56035079 TCAGTAACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (26 bp):
AATATTGTAGCAAAGCTACCAGTAAT
Found at i:56039305 original size:6 final size:6
Alignment explanation
Indices: 56039285--56039332 Score: 71
Period size: 6 Copynumber: 8.0 Consensus size: 6
56039275 TTCACAATAG
*
56039285 AATACTC AAT-TC AATTTC AATATC AATATC AATATC AATATC AATATC
1 AATA-TC AATATC AATATC AATATC AATATC AATATC AATATC AATATC
56039333 CATTTCATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
5 5 0.13
6 31 0.79
7 3 0.08
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (6 bp):
AATATC
Found at i:56039306 original size:18 final size:18
Alignment explanation
Indices: 56039285--56039339 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
56039275 TTCACAATAG
56039285 AATACTCAAT-TCAATTTC
1 AATA-TCAATATCAATTTC
*
56039303 AATATCAATATCAATATC
1 AATATCAATATCAATTTC
*
56039321 AATATCAATATCCATTTC
1 AATATCAATATCAATTTC
56039339 A
1 A
56039340 TGAATCCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATCAATATCAATTTC
Found at i:56040543 original size:11 final size:12
Alignment explanation
Indices: 56040508--56040545 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
56040498 TGTTTAATTC
56040508 TAATAATAATATAA
1 TAAT-ATAATAT-A
56040522 TAATATAATAT-
1 TAATATAATATA
56040533 TAATATAATATA
1 TAATATAATATA
56040545 T
1 T
56040546 TTACTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 1 0.04
13 7 0.30
14 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATAATATA
Found at i:56040627 original size:9 final size:9
Alignment explanation
Indices: 56040613--56040644 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
56040603 TATTACCATA
56040613 TAATTGTAT
1 TAATTGTAT
*
56040622 TAATTGTGT
1 TAATTGTAT
56040631 TAATTGTAT
1 TAATTGTAT
56040640 TAATT
1 TAATT
56040645 TGATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (9 bp):
TAATTGTAT
Found at i:56045717 original size:43 final size:46
Alignment explanation
Indices: 56045664--56045797 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 46
56045654 GAGATATGTG
* *
56045664 GCATTCGAGCTCGTTTAGAGGTCTGAGTTCATTATGGATGC-A-A-
1 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCGATAT
* * **
56045707 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCACGATGGATGCGATTCAT
1 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCGA-T-AT
*
56045755 GTAACATCCGAGCTCGTTGAGAGGTTTGAGTTCATTATGGATG
1 G---CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
56045798 TGTTACATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 35 0.49
44 1 0.01
47 1 0.01
48 1 0.01
51 34 0.47
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCGATAT
Found at i:56049351 original size:99 final size:96
Alignment explanation
Indices: 56049234--56049412 Score: 243
Period size: 99 Copynumber: 1.8 Consensus size: 96
56049224 TACGAGATGT
* * * *
56049234 GTCAGTGTAAGACCATGTCTGGTACATGACATTGGCACG-GATATGTGAGAGCTAGTGTAAGACC
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGACACGAGATAT-T-AG-CCT-GTGTAAGACC
56049298 ATGTCTAGGACATGGCATCGGCCTCGATGACAATA
62 ATGTCTAGGACATGGCATCGGCCTCGATGACAATA
* **
56049333 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATTAGCCTGTGTAAGACCATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGACACGAGATATTAGCCTGTGTAAGACCATGT
*
56049398 CTGGGACATGGCATC
66 CTAGGACATGGCATC
56049413 TGCACCTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
96 28 0.39
97 2 0.03
98 2 0.03
99 34 0.48
100 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTGGGACATGACATCGACACGAGATATTAGCCTGTGTAAGACCATGT
CTAGGACATGGCATCGGCCTCGATGACAATA
Found at i:56049358 original size:49 final size:47
Alignment explanation
Indices: 56049147--56049412 Score: 173
Period size: 47 Copynumber: 5.6 Consensus size: 47
56049137 TGAGAACCAA
* * * * * *
56049147 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGACAATAGCCAG
* * * * ** *
56049195 TGTAAGA-CATGCCTGGGAGA-AGCATCGGCTACGAGA-TGT-GTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACAATAGCCAG
* * * * * * * *
56049239 TGTAAGACCATGTCTGGTACATGACATTGGCACG-GATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACA----ATAGCCAG
* * *
56049289 TGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGACAATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GACTCGA-GACAATAGCCAG
* * * *
56049338 TGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATTAGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACAATAGCCAG
56049385 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
56049413 TGCACCTTAC
Statistics
Matches: 167, Mismatches: 39, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
44 12 0.07
45 13 0.08
46 18 0.11
47 46 0.28
48 12 0.07
49 32 0.19
50 27 0.16
51 4 0.02
53 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACAATAGCCAG
Found at i:56049401 original size:47 final size:49
Alignment explanation
Indices: 56049287--56049412 Score: 175
Period size: 47 Copynumber: 2.6 Consensus size: 49
56049277 TGTGAGAGCT
* * *
56049287 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGACAATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGATGACAATAGCC
* * *
56049336 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-GATATTAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGATGACAATAGCC
*
56049383 TGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
56049413 TGCACCTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
47 36 0.51
48 5 0.07
49 29 0.41
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGATGACAATAGCC
Found at i:56049405 original size:96 final size:93
Alignment explanation
Indices: 56049147--56049412 Score: 256
Period size: 96 Copynumber: 2.8 Consensus size: 93
56049137 TGAGAACCAA
* * * *
56049147 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA-GAGCTAGTGTAAGA-CATGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGA-TATTAGCTAGTGTAAGACCATGTCTG
* * **
56049210 GGAGA-AGCATCGGCTACGAGATGTGTCAG
64 GGACATGGCATCGGCTACGAGAAATGTCAG
* * * **
56049239 TGTAAGACCATGTCTGGTACATGACATTGGCACG-GATATGTGAGAGCTAGTGTAAGACCATGTC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATAT-T---AGCTAGTGTAAGACCATGTC
*
56049303 TAGGACATGGCATCGGCCT-CGATGACAATAGTCAG
62 TGGGACATGGCATCGG-CTACGA-GA-AAT-GTCAG
*
56049338 TGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATTAGCCT-GTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATTAG-CTAGTGTAAGACCATGTCTGG
56049402 GACATGGCATC
65 GACATGGCATC
56049413 TGCACCTTAC
Statistics
Matches: 140, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
89 1 0.01
90 2 0.01
91 1 0.01
92 27 0.19
94 13 0.09
95 10 0.07
96 40 0.29
97 6 0.04
98 1 0.01
99 34 0.24
100 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATTAGCTAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCTACGAGAAATGTCAG
Found at i:56058222 original size:40 final size:40
Alignment explanation
Indices: 56058177--56058344 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
56058167 CGGAATACAA
56058177 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
56058217 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
56058257 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
56058297 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
56058337 CCGGATAT
1 CCGGATAT
56058345 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:56064649 original size:46 final size:43
Alignment explanation
Indices: 56064564--56064683 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 43
56064554 TTTGTGCGCT
*
56064564 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAACC
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCTCAAGATGT--ACC
**
56064610 AGTGTAAGACATGTCTGTGACATGCATCGG-CTACAAGATGTGTC
1 AGTGTAAGACATGTCTG-GACATGCATCGGCCT-CAAGATGTACC
56064654 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCT-GGACAT-GCATC
56064684 AGCACGTATA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
44 10 0.15
45 15 0.23
46 41 0.62
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCTCAAGATGTACC
Found at i:56064714 original size:48 final size:50
Alignment explanation
Indices: 56064649--56064830 Score: 162
Period size: 48 Copynumber: 3.7 Consensus size: 50
56064639 GCTACAAGAT
56064649 GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATA-GAG-
1 GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATATGAGA
* * ** *
56064697 GTGTCAGTGTAAAACCATGT-TGGGGACATGGCATTGGCACGTATATGTGA
1 GTGTCAGTGTAAGACCATGTCT-AGGACATGGCATCAGCACGTATATGAGA
* * * * * *
56064747 GAG-CTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCG-ATTTTGATA
1 GTGTC-AGTGTAAGACCATGTCTAGGACATGGCATCAG-CACGTA-TATGAGA
* *
56064798 GT-T-AGTGTAAGACCATGTCTGGGCCATGGCATC
1 GTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
56064831 GACTTGATGG
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
47 1 0.01
48 39 0.36
49 30 0.28
50 29 0.27
51 9 0.08
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (50 bp):
GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATATGAGA
Found at i:56069808 original size:48 final size:48
Alignment explanation
Indices: 56069753--56070605 Score: 1391
Period size: 48 Copynumber: 17.8 Consensus size: 48
56069743 CAAGATAAAT
* * *
56069753 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56069801 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56069849 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56069897 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* * *
56069945 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56069993 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56070041 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* * *
56070089 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56070137 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* ** *
56070185 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56070233 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56070281 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* * *
56070329 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56070377 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56070425 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56070473 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56070521 ATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56070569 ATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
56070606 TGTTGTAACA
Statistics
Matches: 749, Mismatches: 56, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 749 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
Found at i:56070717 original size:36 final size:37
Alignment explanation
Indices: 56070650--56070793 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
56070640 GGAAATATAT
* *
56070650 TCCGGGTGAGACCCGACGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56070687 TCCGGGCAAGACCCGATGA-TACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56070723 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56070760 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
56070794 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 35 0.36
37 63 0.64
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56070771 original size:73 final size:74
Alignment explanation
Indices: 56070650--56070793 Score: 227
Period size: 73 Copynumber: 2.0 Consensus size: 74
56070640 GGAAATATAT
* * *
56070650 TCCGGGTGAGACCCGACGACTACGTGTGGAGATTATGTCCGGGCAAGACCCGATGA-TACGTGTG
1 TCCGGGTAAGACCCGACGACTACGTGTGGAGAGTATGTCCGGGCAAGACCCGATAACTACGTGTG
56070714 GAGATTATG
66 GAGATTATG
* * *
56070723 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTTCGTGTG
1 TCCGGGTAAGACCCGACGACTACGTGTGGAGAGTATGTCCGGGCAAGACCCGATAACTACGTGTG
56070788 GAGATT
66 GAGATT
56070794 TCGTCTGAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 51 0.80
74 13 0.20
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (74 bp):
TCCGGGTAAGACCCGACGACTACGTGTGGAGAGTATGTCCGGGCAAGACCCGATAACTACGTGTG
GAGATTATG
Found at i:56072098 original size:40 final size:40
Alignment explanation
Indices: 56072026--56072293 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
56072016 GAGAATTGAG
* * *
56072026 AGTGATATATCCGGGCTAA-ATCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
56072065 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
56072105 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
56072145 AGTGATGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
56072184 AGTGATGTATCCGGACTAAG-TCCGAAGAGCATT-GTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
56072222 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
56072262 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
56072294 ATCATGCTGG
Statistics
Matches: 219, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
38 26 0.12
39 77 0.35
40 116 0.53
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:56075829 original size:48 final size:48
Alignment explanation
Indices: 56075774--56076290 Score: 809
Period size: 48 Copynumber: 10.8 Consensus size: 48
56075764 CAAGATAAAT
* * *
56075774 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56075822 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* ** *
56075870 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATACGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56075918 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* * *
56075966 ATATGTACATGTGGTAAAGCCGAATGGCAAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* * *
56076014 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
*
56076062 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56076110 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56076158 ATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* * *
56076206 ATATGTATATGTCGTAAAGCCGAATGGCGAACGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
* *
56076254 ATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
56076291 TGTTGTAACA
Statistics
Matches: 430, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 430 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
Found at i:56076385 original size:37 final size:37
Alignment explanation
Indices: 56076335--56076442 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
56076325 GGAAATATAT
* * *
56076335 TCCGGGTGAGACCCGACGACGACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56076372 TCCGGGTAAGACCCGATGATTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56076409 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
56076443 TCGTCTGAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56085690 original size:20 final size:21
Alignment explanation
Indices: 56085651--56085690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56085641 TTCATGGTGG
56085651 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
56085672 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCATGTTGCCCT
56085691 ATTTCTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:56087226 original size:18 final size:18
Alignment explanation
Indices: 56087205--56087285 Score: 69
Period size: 18 Copynumber: 4.5 Consensus size: 18
56087195 ATATTTAATT
*
56087205 TTTTAATAATTTTTTAGG
1 TTTTAATAATTTTTTAGA
56087223 TTTTAA-AGATTTTTTAGA
1 TTTTAATA-ATTTTTTAGA
* *
56087241 TTTTTAT-ATTTTTTATA
1 TTTTAATAATTTTTTAGA
* *
56087258 TTTTAA-AATGTTTATATA
1 TTTTAATAAT-TTTTTAGA
56087276 TATTTAATAA
1 T-TTTAATAA
56087286 AAATTATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
17 17 0.33
18 28 0.54
19 5 0.10
20 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTAATAATTTTTTAGA
Found at i:56087279 original size:20 final size:18
Alignment explanation
Indices: 56087254--56087301 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
56087244 TTATATTTTT
*
56087254 TATATTTTAAAATGTTTATA
1 TATATTTTAAAA--ATTATA
56087274 TATATTTAATAAAAATTATA
1 TATATTT--TAAAAATTATA
56087294 TATATTTT
1 TATATTTT
56087302 GATAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
20 19 0.76
22 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATTTTAAAAATTATA
Found at i:56092672 original size:21 final size:21
Alignment explanation
Indices: 56092646--56092686 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56092636 ATCTGCTCAA
* *
56092646 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
56092667 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
56092687 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:56095610 original size:25 final size:25
Alignment explanation
Indices: 56095581--56095630 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
56095571 GATTTAGGCA
56095581 GTTTATTAATAAAGGATGGAGAAAC
1 GTTTATTAATAAAGGATGGAGAAAC
56095606 GTTTATTAATAAAGGATGGAGAAAC
1 GTTTATTAATAAAGGATGGAGAAAC
56095631 TCAAAAGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.28
Consensus pattern (25 bp):
GTTTATTAATAAAGGATGGAGAAAC
Found at i:56098998 original size:28 final size:28
Alignment explanation
Indices: 56098966--56099064 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
56098956 TGCATAAGCC
*
56098966 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
56098994 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
56099022 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
56099051 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56099065 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:56106669 original size:28 final size:28
Alignment explanation
Indices: 56106637--56106735 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
56106627 TGCATAAGCC
*
56106637 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
56106665 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
56106693 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
56106722 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56106736 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:56108971 original size:59 final size:59
Alignment explanation
Indices: 56108871--56108997 Score: 191
Period size: 59 Copynumber: 2.2 Consensus size: 59
56108861 TGCATTGATT
* * * * *
56108871 TTTTTAATATATTTGTACAAGTTGTTTTTATATTGTTTCATTTAATAAAACAGAAGTTG
1 TTTTGAATATATTTGTACAAATTATTTTTATATTGTGTCATTTAATAAAACAGAAGTTC
* *
56108930 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTGTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATATTTGTACAAATTATTTTTATATTGTGTCATTTAATAAAACAGAAGTTC
56108989 TTTTGAATA
1 TTTTGAATA
56108998 AGACAATACA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAATTATTTTTATATTGTGTCATTTAATAAAACAGAAGTTC
Found at i:56109008 original size:59 final size:59
Alignment explanation
Indices: 56108886--56109037 Score: 180
Period size: 59 Copynumber: 2.6 Consensus size: 59
56108876 AATATATTTG
* * * ******
56108886 TACAAGTTGTTTTTATATTGTTTCATTTAATAAAACAGAAGTTGTTTTGAATATTTTTG
1 TACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTCTTTTGAATAAGACAA
* *
56108945 TACAAATTATTTTTATATTGTGTCATTTAATAAAATAGAAGTTCTTTTGAATAAGACAA
1 TACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTCTTTTGAATAAGACAA
*
56109004 TACAAATTATTTTT-TCATAGTTTCATTTAATAAA
1 TACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
56109038 TTATGAACTA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
58 1 0.01
59 78 0.99
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (59 bp):
TACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTCTTTTGAATAAGACAA
Found at i:56112032 original size:24 final size:25
Alignment explanation
Indices: 56111966--56112034 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
56111956 CAACTTATAC
* * **
56111966 CTTCTCAACTTCTTTAATTCCTATT
1 CTTCTGAACTTCTTCAATTTATATT
56111991 CTTCTGAACTTCTTCAATTTATATT
1 CTTCTGAACTTCTTCAATTTATATT
56112016 CTTCTGAA-TTCTTCAATTT
1 CTTCTGAACTTCTTCAATTT
56112035 CTCTTATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 11 0.28
25 29 0.73
ACGTcount: A:0.22, C:0.23, G:0.03, T:0.52
Consensus pattern (25 bp):
CTTCTGAACTTCTTCAATTTATATT
Found at i:56112375 original size:28 final size:28
Alignment explanation
Indices: 56112322--56112376 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
56112312 TTTTTCAACC
* *
56112322 TATTTTTTCAGAACCATCTTCTCAAAAT
1 TATTTTTTCAGAACCAACTTCACAAAAT
*
56112350 TATTTTTTCAGAATCAACTAT-ACAAAA
1 TATTTTTTCAGAACCAACT-TCACAAAA
56112377 AAAATCCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (28 bp):
TATTTTTTCAGAACCAACTTCACAAAAT
Found at i:56112444 original size:123 final size:124
Alignment explanation
Indices: 56112133--56112444 Score: 387
Period size: 124 Copynumber: 2.5 Consensus size: 124
56112123 GAAAAGAGTG
* * * *
56112133 TCCAATTGGGAGCTTTTTTCGGTACTTTTGCTAACAGTGCATCCTACTTGAAGTGTTTTTCAACT
1 TCCAATTGGGAGCTTTTTTCAGTACTTTTGATGACAGTGCATCCTACTTGAAGTGTTTTTCAACC
* * *
56112198 TATTTTTTCAAAACTAACTTCTCAAAATTATTTTTCAAAATAAACTGTGCAAAAAAAAA
66 TATTTTTTCAAAACCAACTTCTCAAAATTATTTTTCAAAATAAACTATACAAAAAAAAA
* * * * * ***
56112257 TCCAACTGGGAGCCTTTTTCAGTACTTTTGTTGACAATGCATCCTGCTTGAAACATTTTTCAACC
1 TCCAATTGGGAGCTTTTTTCAGTACTTTTGATGACAGTGCATCCTACTTGAAGTGTTTTTCAACC
* * * *
56112322 TATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCAACTATAC-AAAAAAAA
66 TATTTTTTCAAAACCAACTTCTCAAAATTA-TTTTTCAAAATAAACTATACAAAAAAAAA
* * *
56112381 TCCAGTTGGGAG-TTTTTTCAGTAATTTTGATGACAGTGCATTCTACTT-ACAGTGTTTTTCAAC
1 TCCAATTGGGAGCTTTTTTCAGTACTTTTGATGACAGTGCATCCTACTTGA-AGTGTTTTTCAAC
56112444 C
65 C
56112445 CCAACTATCA
Statistics
Matches: 157, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
122 1 0.01
123 41 0.26
124 99 0.63
125 16 0.10
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (124 bp):
TCCAATTGGGAGCTTTTTTCAGTACTTTTGATGACAGTGCATCCTACTTGAAGTGTTTTTCAACC
TATTTTTTCAAAACCAACTTCTCAAAATTATTTTTCAAAATAAACTATACAAAAAAAAA
Found at i:56112717 original size:27 final size:28
Alignment explanation
Indices: 56112648--56112721 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
56112638 AAAAAAACCC
* *
56112648 TAAAACCCCTAAACCCAAATTTATTTTT
1 TAAAAACCCTAAACCCTAATTTATTTTT
56112676 TAAAAACCCTAAACCCTAATTTATTTTT
1 TAAAAACCCTAAACCCTAATTTATTTTT
* *
56112704 TCAACACCCT-AACCCTAA
1 TAAAAACCCTAAACCCTAA
56112722 ACCATAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 8 0.19
28 34 0.81
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAAAACCCTAAACCCTAATTTATTTTT
Found at i:56113369 original size:23 final size:24
Alignment explanation
Indices: 56113315--56113370 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
56113305 TTTTTTTATT
* *
56113315 TTTTTATTTATATTTTTGTGCTTA
1 TTTTTATTTATATTTTTGTACCTA
* * *
56113339 ATTGTATTT-TCTTTTTGTACCTA
1 TTTTTATTTATATTTTTGTACCTA
56113362 TTTTTATTT
1 TTTTTATTT
56113371 GAACTAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.70
Consensus pattern (24 bp):
TTTTTATTTATATTTTTGTACCTA
Found at i:56115112 original size:17 final size:17
Alignment explanation
Indices: 56115090--56115124 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56115080 AAGATTGATG
56115090 CCCATAGAGGAAAGACC
1 CCCATAGAGGAAAGACC
56115107 CCCATAGAGGAAAGACC
1 CCCATAGAGGAAAGACC
56115124 C
1 C
56115125 TTAAAGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.31, G:0.23, T:0.06
Consensus pattern (17 bp):
CCCATAGAGGAAAGACC
Found at i:56119290 original size:43 final size:43
Alignment explanation
Indices: 56119229--56119417 Score: 283
Period size: 43 Copynumber: 4.4 Consensus size: 43
56119219 ACATATCATT
* * *
56119229 TCACCGGCATTACGCCTGCTAGGTACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
56119272 TCACCGGCACGAAGCCTGCTGGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
56119315 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
56119358 TCACTGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
56119400 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
56119418 GGGATTTATC
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 14 0.10
42 2 0.01
43 118 0.88
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:56119443 original size:38 final size:38
Alignment explanation
Indices: 56119389--56119472 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
56119379 GGCACGAAGG
* * *
56119389 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACAAAGCCTGCGGGATTTAA
*
56119427 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACAAAGCCTGCGGGATTTAA
56119465 CCCGAATA
1 CCCGAATA
56119473 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACAAAGCCTGCGGGATTTAA
Found at i:56122737 original size:48 final size:48
Alignment explanation
Indices: 56122676--56122918 Score: 360
Period size: 48 Copynumber: 4.8 Consensus size: 48
56122666 ATATATGTGC
56122676 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
56122724 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTG-AA-A--TAT--G-----TATGAGATATGTATAT
56122783 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
56122831 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
* * *
56122879 GTGGTAAAGCCGAATGGCTAGTGTGAACTATGTAGGAGAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
56122919 GTGTGTATAT
Statistics
Matches: 181, Mismatches: 3, Indels: 22
0.88 0.01 0.11
Matches are distributed among these distances:
48 126 0.70
49 2 0.01
50 1 0.01
52 3 0.02
53 1 0.01
54 1 0.01
55 3 0.02
57 1 0.01
58 2 0.01
59 41 0.23
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
Found at i:56122796 original size:107 final size:107
Alignment explanation
Indices: 56122676--56122872 Score: 394
Period size: 107 Copynumber: 1.8 Consensus size: 107
56122666 ATATATGTGC
56122676 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
56122741 CTAATGTGAAATATGTATGAGATATATATGAGATATGTATAT
66 CTAATGTGAAATATGTATGAGATATATATGAGATATGTATAT
56122783 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
56122848 CTAATGTGAAATATGTATGAGATAT
66 CTAATGTGAAATATGTATGAGATAT
56122873 GTATATGTGG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (107 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
CTAATGTGAAATATGTATGAGATATATATGAGATATGTATAT
Found at i:56122800 original size:59 final size:58
Alignment explanation
Indices: 56122703--56122872 Score: 252
Period size: 59 Copynumber: 3.1 Consensus size: 58
56122693 CTAATGTGAA
56122703 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATAT-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56122762 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-A--TAT--G
1 ATAT-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56122815 ----TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
56122869 ATAT
1 ATAT
56122873 GTATATGTGG
Statistics
Matches: 100, Mismatches: 1, Indels: 21
0.82 0.01 0.17
Matches are distributed among these distances:
48 41 0.41
49 2 0.02
50 1 0.01
52 3 0.03
53 1 0.01
54 1 0.01
55 3 0.03
57 1 0.01
58 2 0.02
59 45 0.45
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (58 bp):
ATATTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:56123851 original size:2 final size:2
Alignment explanation
Indices: 56123844--56123871 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56123834 TCTTTATAAA
56123844 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
56123872 TCGAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56125836 original size:67 final size:67
Alignment explanation
Indices: 56125728--56125862 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
56125718 TTATTCTATT
56125728 ACTAAACATTTTATGACACAAAATAACATATATTATTTGTGCCATACTTATGCCATAACTTCAAT
1 ACTAAACATTTTATGACACAAAATAACATATATTATTTGTGCCATACTTATGCCATAACTTCAAT
56125793 AA
66 AA
56125795 ACTAAACATTTTATGACACAAAATAACATATATTATTTGTGCCATACTTATGCCATAACTTCAAT
1 ACTAAACATTTTATGACACAAAATAACATATATTATTTGTGCCATACTTATGCCATAACTTCAAT
56125860 AA
66 AA
56125862 A
1 A
56125863 AAAATTTGCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (67 bp):
ACTAAACATTTTATGACACAAAATAACATATATTATTTGTGCCATACTTATGCCATAACTTCAAT
AA
Found at i:56128077 original size:15 final size:16
Alignment explanation
Indices: 56128048--56128081 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
56128038 ACTTCGACTC
56128048 TTTGTTTTTTCTTTTT
1 TTTGTTTTTTCTTTTT
56128064 TTTGTTTTTGT-TTTTT
1 TTTGTTTTT-TCTTTTT
56128080 TT
1 TT
56128082 AAGTATCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (16 bp):
TTTGTTTTTTCTTTTT
Found at i:56134950 original size:19 final size:20
Alignment explanation
Indices: 56134926--56134977 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
56134916 TTTTTAAGAT
56134926 TTATTATAAAATTATAT-AA
1 TTATTATAAAATTATATCAA
56134945 TTATTA-AAAATT-TATCAA
1 TTATTATAAAATTATATCAA
56134963 --ATTATAAAATCTATA
1 TTATTATAAAAT-TATA
56134978 AGAAGTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.14
17 8 0.28
18 9 0.31
19 8 0.28
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTATAAAATTATATCAA
Found at i:56135270 original size:9 final size:9
Alignment explanation
Indices: 56135241--56135332 Score: 66
Period size: 8 Copynumber: 10.2 Consensus size: 9
56135231 GTTATGATTT
56135241 ATTTTTATA
1 ATTTTTATA
* *
56135250 ATTTGTGT-
1 ATTTTTATA
56135258 ATTTTTATA
1 ATTTTTATA
56135267 A-TTTTAT-
1 ATTTTTATA
*
56135274 TTTTTTATA
1 ATTTTTATA
56135283 ATTTTTACTTA
1 ATTTTTA--TA
*
56135294 ATTTTGATA
1 ATTTTTATA
56135303 A-TTTTATA
1 ATTTTTATA
* *
56135311 AATTTTATT
1 ATTTTTATA
56135320 ATGATTTTATA
1 AT--TTTTATA
56135331 AT
1 AT
56135333 CTCATAAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
8 25 0.39
9 23 0.36
11 16 0.25
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:56135271 original size:8 final size:8
Alignment explanation
Indices: 56135243--56135332 Score: 63
Period size: 9 Copynumber: 10.1 Consensus size: 8
56135233 TATGATTTAT
56135243 TTTTATAA
1 TTTTATAA
* *
56135251 TTTGTGTAT
1 TTT-TATAA
56135260 TTTTATAA
1 TTTTATAA
**
56135268 TTTTATTT
1 TTTTATAA
56135276 TTTTATAA
1 TTTTATAA
56135284 TTTTTACTTAA
1 -TTTTA--TAA
56135295 TTTTGATAA
1 TTTT-ATAA
56135304 TTTTATAAA
1 TTTTAT-AA
56135313 TTTTATTATGA
1 TTTTA-TA--A
56135324 TTTTATAA
1 TTTTATAA
56135332 T
1 T
56135333 CTCATAAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
8 22 0.34
9 26 0.40
10 7 0.11
11 10 0.15
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:56135278 original size:16 final size:16
Alignment explanation
Indices: 56135240--56135310 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 16
56135230 AGTTATGATT
*
56135240 TATTTTTATAATTTGTG
1 TATTTTTATAATTT-TA
56135257 TATTTTTATAATTTTA
1 TATTTTTATAATTTTA
*
56135273 TTTTTTTATAATTTTTA
1 TATTTTTATAA-TTTTA
*
56135290 CTTAATTTTGATAATTTTA
1 --T-ATTTTTATAATTTTA
56135309 TA
1 TA
56135311 AATTTTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
16 12 0.26
17 20 0.43
19 6 0.13
20 8 0.17
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (16 bp):
TATTTTTATAATTTTA
Found at i:56135331 original size:28 final size:28
Alignment explanation
Indices: 56135262--56135341 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
56135252 TTGTGTATTT
** *
56135262 TTATAATTTTATTTTTTTATAATTTTTAC
1 TTAT-ATTTTATAATTTTATAAATTTTAC
56135291 TTA-ATTTTGATAATTTTATAAATTTTA-
1 TTATATTTT-ATAATTTTATAAATTTTAC
* *
56135318 TTATGATTTTATAATCTCATAAAT
1 TTAT-ATTTTATAATTTTATAAAT
56135342 GAATATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 8 0.19
28 27 0.63
29 8 0.19
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (28 bp):
TTATATTTTATAATTTTATAAATTTTAC
Found at i:56136213 original size:21 final size:21
Alignment explanation
Indices: 56136189--56136231 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56136179 GAATTTTCCA
**
56136189 TGTAAAAATTCAAGTTTTTCT
1 TGTAAAAACCCAAGTTTTTCT
*
56136210 TGTAAAAACCCATGTTTTTCT
1 TGTAAAAACCCAAGTTTTTCT
56136231 T
1 T
56136232 TATAAAGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (21 bp):
TGTAAAAACCCAAGTTTTTCT
Found at i:56142149 original size:31 final size:31
Alignment explanation
Indices: 56142111--56142172 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
56142101 GTTGTTAGGC
*
56142111 GTATTTTAGGTAGTATAAAAAATTAATAAGG
1 GTATTTTAGGTAGTATAAAAAATCAATAAGG
* *
56142142 GTATTTTAGGTAGTATCAATAATCAATAAGG
1 GTATTTTAGGTAGTATAAAAAATCAATAAGG
56142173 ATAATTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (31 bp):
GTATTTTAGGTAGTATAAAAAATCAATAAGG
Found at i:56145190 original size:144 final size:144
Alignment explanation
Indices: 56144930--56145210 Score: 517
Period size: 144 Copynumber: 2.0 Consensus size: 144
56144920 GATCATCTAA
* * *
56144930 GACTTCGTTACCAAGTCCCTAGATACGCACACGACTGAAAAAGAAAATCAAGATTTATTTTCTTG
1 GACTTCGTTACCAAGTCCCTAGATACGCACACAACTGAAAAAGAAAATCAAGATTCACTTTCTTG
*
56144995 TTTTCAAGAAAATTAAGAAACTAAATCTTGGTCAAATTTTATTGTTTCAGACAATTTCAAGAATC
66 TTTTCAAGAAAATTAAGAAACTAAACCTTGGTCAAATTTTATTGTTTCAGACAATTTCAAGAATC
56145060 AAGATTTCAAAGAT
131 AAGATTTCAAAGAT
56145074 GACTTCGTTACCAAGTCCCTAGATACGCACACAACTGAAAAAGAAAATCAAGATTCACTTTCTTG
1 GACTTCGTTACCAAGTCCCTAGATACGCACACAACTGAAAAAGAAAATCAAGATTCACTTTCTTG
*
56145139 TTTTCAAGAAAATTAAGAAACTAAACCTTGGTCAAATTTTGTTGTTTCAGACAATTTCAAGAATC
66 TTTTCAAGAAAATTAAGAAACTAAACCTTGGTCAAATTTTATTGTTTCAGACAATTTCAAGAATC
56145204 AAGATTT
131 AAGATTT
56145211 TAAATCTTGG
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 132 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (144 bp):
GACTTCGTTACCAAGTCCCTAGATACGCACACAACTGAAAAAGAAAATCAAGATTCACTTTCTTG
TTTTCAAGAAAATTAAGAAACTAAACCTTGGTCAAATTTTATTGTTTCAGACAATTTCAAGAATC
AAGATTTCAAAGAT
Found at i:56148015 original size:17 final size:18
Alignment explanation
Indices: 56147978--56148015 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
56147968 TATTAATTGA
*
56147978 TTATATATTAATTTATAT
1 TTATATATTAATATATAT
*
56147996 TTATATA-TAATATATTT
1 TTATATATTAATATATAT
56148013 TTA
1 TTA
56148016 ATTTCTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATATTAATATATAT
Found at i:56148244 original size:12 final size:12
Alignment explanation
Indices: 56148227--56148251 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56148217 GAAGGTGAAA
56148227 ATGTAAGTAATT
1 ATGTAAGTAATT
56148239 ATGTAAGTAATT
1 ATGTAAGTAATT
56148251 A
1 A
56148252 CACCTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGTAAGTAATT
Found at i:56149649 original size:17 final size:17
Alignment explanation
Indices: 56149627--56149746 Score: 59
Period size: 17 Copynumber: 6.8 Consensus size: 17
56149617 GTTTAACTAT
56149627 TTTTTTATAATTTTAAA
1 TTTTTTATAATTTTAAA
* *
56149644 TTTTTTAGAATTTAATTAA
1 TTTTTTATAATTT--TAAA
* *
56149663 TCTTTTAT-ATTTTTAA
1 TTTTTTATAATTTTAAA
* **
56149679 TTTTTCTATACTTTTTGGA
1 TTTTT-TATA-ATTTTAAA
*
56149698 TTTTTT-TACGTTTCT-AA
1 TTTTTTATA-ATTT-TAAA
*
56149715 TCTTTTAT-ATTTTAAA
1 TTTTTTATAATTTTAAA
56149731 TTTTTCTATACATTTT
1 TTTTT-TATA-ATTTT
56149747 CTTAACTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
15 1 0.01
16 17 0.22
17 30 0.38
18 7 0.09
19 24 0.30
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTTATAATTTTAAA
Found at i:56149658 original size:36 final size:37
Alignment explanation
Indices: 56149606--56149686 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
56149596 CCATAAATTC
* *
56149606 TTTTTCTAGAAGTTTAACTATTTTTTTATAATTTTAAA
1 TTTTTCTAGAAGTTTAACTAATCTTTTAT-ATTTTAAA
* *
56149644 TTTTT-TAGAA-TTTAATTAATCTTTTATATTTTTAA
1 TTTTTCTAGAAGTTTAACTAATCTTTTATATTTTAAA
56149679 TTTTTCTA
1 TTTTTCTA
56149687 TACTTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 12 0.32
36 16 0.42
37 5 0.13
38 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.62
Consensus pattern (37 bp):
TTTTTCTAGAAGTTTAACTAATCTTTTATATTTTAAA
Found at i:56149788 original size:19 final size:19
Alignment explanation
Indices: 56149766--56149820 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
56149756 TAAATATATT
**
56149766 TAAATATTTTTTATTTTTA
1 TAAATATTTTGAATTTTTA
*
56149785 TAAAAATTTTGAATTTTTA
1 TAAATATTTTGAATTTTTA
* *
56149804 TATATATTTAGAATTTT
1 TAAATATTTTGAATTTT
56149821 AGAATTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TAAATATTTTGAATTTTTA
Found at i:56150052 original size:14 final size:16
Alignment explanation
Indices: 56150021--56150052 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
56150011 AACACAAGCC
56150021 TTTATAGTTTTCAACA
1 TTTATAGTTTTCAACA
56150037 TTTATA-TTTT-AACA
1 TTTATAGTTTTCAACA
56150051 TT
1 TT
56150053 CAACAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTATAGTTTTCAACA
Found at i:56150864 original size:16 final size:16
Alignment explanation
Indices: 56150829--56150892 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
56150819 AATTATAATT
** *
56150829 TAAAAATACAAATTAT
1 TAAAAATACAAAAAAA
56150845 TAAAAATACAAAAAAA
1 TAAAAATACAAAAAAA
56150861 T-AAAATA-AAAAAATTA
1 TAAAAATACAAAAAA--A
*
56150877 TAAAAA-ATAAAAAAA
1 TAAAAATACAAAAAAA
56150892 T
1 T
56150893 TACTATGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.15
15 8 0.20
16 17 0.41
17 10 0.24
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAATACAAAAAAA
Found at i:56150865 original size:8 final size:8
Alignment explanation
Indices: 56150846--56150892 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
56150836 ACAAATTATT
*
56150846 AAAAATAC
1 AAAAATAA
56150854 AAAAA-AA
1 AAAAATAA
*
56150861 TAAAATAA
1 AAAAATAA
56150869 AAAAATTATA
1 AAAAA-TA-A
56150879 AAAAATAA
1 AAAAATAA
56150887 AAAAAT
1 AAAAAT
56150893 TACTATGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 5 0.15
8 18 0.55
9 4 0.12
10 6 0.18
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAATAA
Found at i:56153247 original size:17 final size:17
Alignment explanation
Indices: 56153225--56153259 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56153215 AACTGGAAAA
56153225 ACATGTTATATATTTTT
1 ACATGTTATATATTTTT
56153242 ACATGTTATATATTTTT
1 ACATGTTATATATTTTT
56153259 A
1 A
56153260 GTTTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
ACATGTTATATATTTTT
Found at i:56153788 original size:20 final size:19
Alignment explanation
Indices: 56153765--56153834 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
56153755 ATTACAAAAC
*
56153765 AAAATTCAAAATAATTTTCA
1 AAAATTTAAAATAATTTT-A
56153785 AAAATTTAAAATAAATTTT-
1 AAAATTTAAAAT-AATTTTA
56153804 AAAATTTAAAAT-ATTTATAA
1 AAAATTTAAAATAATTT-T-A
56153824 AAAATTTAAAA
1 AAAATTTAAAA
56153835 ATTTATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 12 0.27
20 22 0.49
21 6 0.13
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTA
Found at i:56153842 original size:25 final size:25
Alignment explanation
Indices: 56153788--56153868 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 25
56153778 ATTTTCAAAA
*
56153788 ATTTA-AAATAAATTTTAAAATTTAAAAT
1 ATTTATAAA-AAATTTAAAAATTT---AT
56153816 ATTTATAAAAAATTTAAAAATTTAT
1 ATTTATAAAAAATTTAAAAATTTAT
*
56153841 ATTTTTAAAAAATTCTAAAAATTATAT
1 ATTTATAAAAAATT-TAAAAATT-TAT
56153868 A
1 A
56153869 AAAAAGTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.31
26 8 0.17
27 4 0.08
28 18 0.38
29 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTATAAAAAATTTAAAAATTTAT
Found at i:56153891 original size:46 final size:45
Alignment explanation
Indices: 56153804--56153892 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
56153794 AATAAATTTT
* *
56153804 AAAATTTAAAATATTTATAAAAAATTTAAAAATTTATATTTTTAA
1 AAAATTTAAAATATTTATAAAAAAGTTAAAAATTTAAATTTTTAA
56153849 AAAATTCTAAAA-ATTATATAAAAAAGTT-AAAATTTAAAATTTTT
1 AAAATT-TAAAATATT-TATAAAAAAGTTAAAAATTT-AAATTTTT
56153893 TCTAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 16 0.41
46 23 0.59
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (45 bp):
AAAATTTAAAATATTTATAAAAAAGTTAAAAATTTAAATTTTTAA
Found at i:56155947 original size:21 final size:21
Alignment explanation
Indices: 56155904--56155950 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
56155894 AATTGGTGTC
* **
56155904 AAGA-TTGACAAGATTTGCGA
1 AAGATTTGACAAGATCTGAAA
56155924 AAGATTTGACAAGATCTGAAA
1 AAGATTTGACAAGATCTGAAA
56155945 AAGATT
1 AAGATT
56155951 GATTAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (21 bp):
AAGATTTGACAAGATCTGAAA
Found at i:56161138 original size:12 final size:12
Alignment explanation
Indices: 56161121--56161145 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56161111 TAAGCCTCTC
56161121 ATTTGTGTTTTA
1 ATTTGTGTTTTA
56161133 ATTTGTGTTTTA
1 ATTTGTGTTTTA
56161145 A
1 A
56161146 CTCCCTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (12 bp):
ATTTGTGTTTTA
Found at i:56170850 original size:41 final size:41
Alignment explanation
Indices: 56170805--56170888 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
56170795 TTCAAGGAAG
56170805 ACTTAAAAATTCCAATCCTATTAGGGCTACCGTTTTTAGCT
1 ACTTAAAAATTCCAATCCTATTAGGGCTACCGTTTTTAGCT
*
56170846 ACTTAAAGATTCCAATCCTATTAGGGCTACCGTTTTTAGCT
1 ACTTAAAAATTCCAATCCTATTAGGGCTACCGTTTTTAGCT
56170887 AC
1 AC
56170889 CTCTCGAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (41 bp):
ACTTAAAAATTCCAATCCTATTAGGGCTACCGTTTTTAGCT
Found at i:56172268 original size:43 final size:42
Alignment explanation
Indices: 56172167--56172269 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
56172157 GATTTACGTA
* * ** *
56172167 TAAGACCATGTCCGGGACATCGGCATCGTATCTGATTTCATG
1 TAAGACCACGTCTGGGACAGAGGCATCGTATCTGATTACATG
*
56172209 TAAGACC-CTGTTTGGGACAGAGGCATCGATAT-TGAATTACATG
1 TAAGACCAC-GTCTGGGACAGAGGCATCG-TATCTG-ATTACATG
56172252 TAAGACCACGTCTGGGAC
1 TAAGACCACGTCTGGGAC
56172270 GTCAACATTG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
42 24 0.48
43 25 0.50
44 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACAGAGGCATCGTATCTGATTACATG
Found at i:56175616 original size:7 final size:7
Alignment explanation
Indices: 56175604--56175638 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
56175594 AAAGTGAATA
56175604 ATATGTG
1 ATATGTG
56175611 ATATGTG
1 ATATGTG
56175618 ATATGTG
1 ATATGTG
56175625 ATATGTG
1 ATATGTG
56175632 AGTATGT
1 A-TATGT
56175639 TTACATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
ATATGTG
Found at i:56175930 original size:185 final size:185
Alignment explanation
Indices: 56175618--56175964 Score: 613
Period size: 185 Copynumber: 1.9 Consensus size: 185
56175608 GTGATATGTG
*
56175618 ATATGTGATATGTGAGTATGTTTACATGGAAATGTGTAAAATTGAGAAATATGCATTAAGTGAGA
1 ATATGTGATATGTGAGTATGTTTACATGAAAATGTGTAAAATTGAGAAATATGCATTAAGTGAGA
* *
56175683 CTATGAGCATGATTACATGTGAAAAATGATTAAATGTTTTAAATTTGAAAATGGCCATATCACAT
66 CTATGAGCATGACTACATGTGAAAAATGATTAAATGTGTTAAATTTGAAAATGGCCATATCACAT
*
56175748 GCATGGAATGGGTCTGGTGAAAGGTGGAAGTTCTAAAGTGAATAAAAAGTGAATA
131 GCATGGAATGGGTCTGGTGAAAGGTAGAAGTTCTAAAGTGAATAAAAAGTGAATA
**
56175803 ATATGTGATATGTGAGTATGTTTACATGAAAATGTGTAAAATTGAGAAATATGTGTTAAGTGAGA
1 ATATGTGATATGTGAGTATGTTTACATGAAAATGTGTAAAATTGAGAAATATGCATTAAGTGAGA
*
56175868 CTATGAGCATGACTACATGTGAAAAATGATTAAATGTGTTAAATTTGAAAATGGTCATATCACAT
66 CTATGAGCATGACTACATGTGAAAAATGATTAAATGTGTTAAATTTGAAAATGGCCATATCACAT
* *
56175933 GCATGGAGTGGGTCTTGTGAAAGGTAGAAGTT
131 GCATGGAATGGGTCTGGTGAAAGGTAGAAGTT
56175965 ATCTGGCAGT
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
185 153 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (185 bp):
ATATGTGATATGTGAGTATGTTTACATGAAAATGTGTAAAATTGAGAAATATGCATTAAGTGAGA
CTATGAGCATGACTACATGTGAAAAATGATTAAATGTGTTAAATTTGAAAATGGCCATATCACAT
GCATGGAATGGGTCTGGTGAAAGGTAGAAGTTCTAAAGTGAATAAAAAGTGAATA
Found at i:56179015 original size:26 final size:26
Alignment explanation
Indices: 56178979--56179088 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
56178969 CATGAAATTC
56178979 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
56179005 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
56179031 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
56179057 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
56179083 TTATCA
1 TTATCA
56179089 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:56186848 original size:26 final size:26
Alignment explanation
Indices: 56186793--56186848 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
56186783 TTATGATTTT
* *
56186793 TTAATAATAATTTTATTAAATTATAT
1 TTAATAATAATTTTATTAAAATATAG
*
56186819 TTAATAATAATTATT-TTAAAATATGG
1 TTAATAATAATT-TTATTAAAATATAG
56186845 TTAA
1 TTAA
56186849 ATTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TTAATAATAATTTTATTAAAATATAG
Found at i:56194641 original size:38 final size:38
Alignment explanation
Indices: 56194596--56194680 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
56194586 GGCTTAAAGA
56194596 CCCGCAGGCTAT-ATGCTAGAATTATATCTGGGTTAAAT
1 CCCGCAGGCT-TCATGCTAGAATTATATCTGGGTTAAAT
* * *
56194634 CCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTTCATGCTAGAATTATATCTGGGTTAAAT
56194672 CCCGCAGGC
1 CCCGCAGGC
56194681 CTAGTGCTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.02
38 42 0.98
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTAGAATTATATCTGGGTTAAAT
Found at i:56194688 original size:38 final size:38
Alignment explanation
Indices: 56194616--56194745 Score: 170
Period size: 38 Copynumber: 3.4 Consensus size: 38
56194606 ATATGCTAGA
56194616 ATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
56194654 ATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
56194692 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATCT-GGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
* * *
56194732 GTTATGTTTGGGTT
1 ATTATATCTGGGTT
56194746 TTATACCTCG
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
38 45 0.58
39 9 0.12
40 24 0.31
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (38 bp):
ATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:56197896 original size:9 final size:9
Alignment explanation
Indices: 56197882--56197914 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
56197872 GTTAAACGAA
56197882 TCGAGTTAT
1 TCGAGTTAT
*
56197891 TCGAGTTAA
1 TCGAGTTAT
56197900 TCGAGTTAT
1 TCGAGTTAT
56197909 TCGAGT
1 TCGAGT
56197915 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56197903 original size:18 final size:18
Alignment explanation
Indices: 56197880--56197914 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56197870 GAGTTAAACG
56197880 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
56197898 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
56197915 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:56197983 original size:9 final size:9
Alignment explanation
Indices: 56197966--56198002 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56197956 TGAGTTTTCG
56197966 AATTCGAAT
1 AATTCGAAT
*
56197975 AACTCGAAT
1 AATTCGAAT
56197984 AATTCGAAT
1 AATTCGAAT
56197993 AATTCGAAT
1 AATTCGAAT
56198002 A
1 A
56198003 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:56199037 original size:5 final size:5
Alignment explanation
Indices: 56199027--56199052 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56199017 CTCGAAAATT
56199027 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
56199053 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:56201215 original size:17 final size:17
Alignment explanation
Indices: 56201193--56201281 Score: 68
Period size: 17 Copynumber: 5.7 Consensus size: 17
56201183 CCATTAAGCC
56201193 CCCAAAAAAAAACCTAA
1 CCCAAAAAAAAACCTAA
56201210 CCCAAAAAAAAA-C-AA
1 CCCAAAAAAAAACCTAA
** **
56201225 -AGAAAAAAAAA-AGAA
1 CCCAAAAAAAAACCTAA
*
56201240 ---AAAGAAAAACCT-A
1 CCCAAAAAAAAACCTAA
*
56201253 CCCTAAAAAAAACCTAA
1 CCCAAAAAAAAACCTAA
56201270 CCCAAAAAAAAA
1 CCCAAAAAAAAA
56201282 AAGAAGAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
13 9 0.16
14 9 0.16
15 4 0.07
16 11 0.19
17 24 0.42
ACGTcount: A:0.71, C:0.21, G:0.03, T:0.04
Consensus pattern (17 bp):
CCCAAAAAAAAACCTAA
Found at i:56201247 original size:11 final size:11
Alignment explanation
Indices: 56201215--56201248 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
56201205 CCTAACCCAA
56201215 AAAAAAACAAAG
1 AAAAAAA-AAAG
56201227 AAAAAAAAAAG
1 AAAAAAAAAAG
56201238 AAAAAGAAAAA
1 AAAAA-AAAAA
56201249 CCTACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:56201263 original size:16 final size:16
Alignment explanation
Indices: 56201244--56201280 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
56201234 AAAGAAAAAG
56201244 AAAAACCT-ACCCTAAA
1 AAAAACCTAACCC-AAA
56201260 AAAAACCTAACCCAAA
1 AAAAACCTAACCCAAA
56201276 AAAAA
1 AAAAA
56201281 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.65, C:0.27, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAACCTAACCCAAA
Found at i:56201321 original size:44 final size:41
Alignment explanation
Indices: 56201196--56201322 Score: 96
Period size: 44 Copynumber: 2.8 Consensus size: 41
56201186 TTAAGCCCCC
56201196 AAAA-AAAAACCTAACCCAAAAAAAA-ACAAAGAAAAAAAAAAGA
1 AAAAGAAAAACCTAA--CAAAAAAAATA-AAA-AAAAAAAAAAGA
*
56201239 AAAAGAAAAACCTACCCTAAAAAAAACCTAACCCAAAAAAAAAAAGAAGAA
1 AAAAGAAAAACCTA-AC-AAAAAAAA--T-A---AAAAAAAAAAA-AAG-A
56201290 AAAAGAAAAACCTAACAAAAAAAGATAAAAAAA
1 AAAAGAAAAACCTAACAAAAAAA-ATAAAAAAA
56201323 CCTAGCCACC
Statistics
Matches: 70, Mismatches: 2, Indels: 23
0.74 0.02 0.24
Matches are distributed among these distances:
43 5 0.07
44 23 0.33
47 1 0.01
48 2 0.03
49 15 0.21
50 9 0.13
51 15 0.21
ACGTcount: A:0.75, C:0.15, G:0.06, T:0.05
Consensus pattern (41 bp):
AAAAGAAAAACCTAACAAAAAAAATAAAAAAAAAAAAAAGA
Found at i:56203861 original size:12 final size:12
Alignment explanation
Indices: 56203844--56203879 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
56203834 CATCATTTGA
56203844 CATTCATGCATT
1 CATTCATGCATT
56203856 CATTCATGCATT
1 CATTCATGCATT
*
56203868 CATTCATACATT
1 CATTCATGCATT
56203880 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:56209190 original size:70 final size:68
Alignment explanation
Indices: 56209071--56209492 Score: 399
Period size: 71 Copynumber: 6.2 Consensus size: 68
56209061 GAGTTAAGCC
*
56209071 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGC
56209135 TGAGGTA
62 TGAGGTA
* * * * *
56209142 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTG
56209207 AGGTA
64 AGGTA
* *
56209212 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCT
56209277 GAGGTA
63 GAGGTA
* * * ** * * *
56209283 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT--------TTTA-
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAG
56209339 --A
66 GTA
** ** *
56209340 TTTT-TGTTTTTCA---AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAG
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAG
56209401 GTA
66 GTA
* *
56209404 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGC
56209469 TGAGGTA
62 TGAGGTA
*
56209476 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
56209493 CAATTTACGT
Statistics
Matches: 287, Mismatches: 41, Indels: 47
0.77 0.11 0.13
Matches are distributed among these distances:
53 31 0.11
56 5 0.02
57 5 0.02
60 2 0.01
61 2 0.01
64 5 0.02
66 4 0.01
67 1 0.00
69 34 0.12
70 66 0.23
71 100 0.35
72 32 0.11
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (68 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAG
GTA
Found at i:56209379 original size:122 final size:123
Alignment explanation
Indices: 56209213--56209458 Score: 381
Period size: 122 Copynumber: 2.0 Consensus size: 123
56209203 GTTGAGGTAT
56209213 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTG
* *
56209278 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
65 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
56209334 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTG
* * * *
56209399 AGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
56209458 T
1 T
56209459 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
121 31 0.27
122 41 0.36
123 13 0.12
124 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGA
GGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:56209382 original size:193 final size:204
Alignment explanation
Indices: 56209161--56209693 Score: 601
Period size: 193 Copynumber: 2.6 Consensus size: 204
56209151 TTTGTGTTTT
* * * *
56209161 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* *
56209226 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TT-TTT-
66 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTATTTC
**
56209288 AG-TTT-A-T-GTT-TT-A-AATTGACTCATATTGCGAGAGGT-GAGTT-AAGCCTTTTAATTT-
131 AGTTTTAATTAGTTGTTAAGAATCAACTCATATTGCGAGAGGTAG-GTTGAA-CCTTTTAATTTC
**
56209343 TTGTTTTTCAA
194 TACTTTTTCAA
* *
56209354 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* ** *
56209418 GTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
66 -TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA-TTT--A
*
56209483 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTT
127 TTTCAGTTTT-AA-TTA-GTTGTT-AAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTT
56209548 AATTTCTACTTTTTCAA
188 AATTTCTACTTTTTCAA
* *
56209565 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* * * * * *
56209630 TGTCAAAAAAATCAACT-GTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
66 TTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--GCACGCTGAGGTATTT
56209694 TCAATTTCCG
Statistics
Matches: 283, Mismatches: 30, Indels: 33
0.82 0.09 0.10
Matches are distributed among these distances:
192 25 0.09
193 84 0.30
195 2 0.01
198 3 0.01
199 1 0.00
200 3 0.01
202 1 0.00
204 1 0.00
206 3 0.01
207 2 0.01
209 1 0.00
210 35 0.12
211 48 0.17
212 26 0.09
213 26 0.09
214 11 0.04
215 11 0.04
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (204 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTATTTC
AGTTTTAATTAGTTGTTAAGAATCAACTCATATTGCGAGAGGTAGGTTGAACCTTTTAATTTCTA
CTTTTTCAA
Found at i:56209665 original size:73 final size:75
Alignment explanation
Indices: 56209563--56210396 Score: 241
Period size: 79 Copynumber: 10.5 Consensus size: 75
56209553 CTACTTTTTC
* *
56209563 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATTTC
56209627 TGTTGTCAAA
66 TGTTGTCAAA
* * *
56209637 AAAATCAACT-GTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAATTT
* *
56209701 CCGTTTTTCAATTTTTGCCTTTCA
65 CTG-TTGTCAA------------A
*** * * *
56209725 AAAA--AA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
1 AAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCA
56209786 ATTTCTGTTGTCAAA
61 ATTTCTGTTGTCAAA
* *
56209801 AAAATCAACTCGTATT--GAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAATTT
* *
56209864 CCGTTTTTCAATTTTTGCCTTTCA
65 CTG-TTGTCAA------------A
*** * * *
56209888 AAAA--AA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
1 AAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCA
56209949 ATTTCTGTTGTCAAA
61 ATTTCTGTTGTCAAA
* * * * * *
56209964 AAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCACACGCCGAGGTAATTTCAATTT
*
56210029 CAT-TTTTCAATTTCTGCA
65 C-TGTTGTCAA-------A
** *** *** * * * * *
56210047 TTTCAAAAAAAAAAAATCAACTC-ATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCTGAGG
1 ----AAAATCAACTCAT-ATTGCGAGA-GGCGAGT-------TGAGCCTCAGGCACACGCCGAGG
*
56210110 TAATTTCAATTTCTGTTTTC--A
53 TAATTTCAATTTCTGTTGTCAAA
* * *** * ** *
56210131 AAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATTTC
*
56210195 TGTTTTC-AA
66 TGTTGTCAAA
* * * * * * * *
56210204 AAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA--CGCCGAGGTAATTTCAATT
* *
56210268 TCTATCTTTCAAA
64 TCTGT-TGTCAAA
* * * * * *
56210281 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCACACGCCGAGGTA--ATTTCAAT
* * *
56210346 TTATATTTTTCAAA
63 TTCT-GTTGTCAAA
* * *
56210360 AAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
56210397 GGGTTACATG
Statistics
Matches: 567, Mismatches: 107, Indels: 167
0.67 0.13 0.20
Matches are distributed among these distances:
72 54 0.10
73 60 0.11
74 53 0.09
75 50 0.09
76 54 0.10
77 46 0.08
78 5 0.01
79 63 0.11
80 10 0.02
83 1 0.00
84 3 0.01
85 3 0.01
86 3 0.01
87 15 0.03
88 24 0.04
89 55 0.10
91 32 0.06
92 1 0.00
93 26 0.05
94 1 0.00
95 8 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATTTC
TGTTGTCAAA
Found at i:56209833 original size:72 final size:74
Alignment explanation
Indices: 56209722--56209864 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 74
56209712 TTTTTGCCTT
* *
56209722 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
1 TCAAAAAAATCAACTCATATT-CGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCA
56209786 ATTTCTGTTG
65 ATTTCTGTTG
* *
56209796 TCAAAAAAATCAACTCGTATT-GAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 TCAAAAAAATCAACTCATATTCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
56209860 ATTTC
65 ATTTC
56209865 CGTTTTTCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
72 21 0.33
74 42 0.67
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (74 bp):
TCAAAAAAATCAACTCATATTCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTGTTG
Found at i:56209904 original size:163 final size:164
Alignment explanation
Indices: 56209563--56210200 Score: 975
Period size: 163 Copynumber: 3.9 Consensus size: 164
56209553 CTACTTTTTC
56209563 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
56209628 GTTGTCAAAAAAATCAACT-GTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATT-CGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
56209692 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAA
130 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAA
56209727 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
56209792 GTTGTCAAAAAAATCAACTCGTATT-GAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
66 GTTGTCAAAAAAATCAACTCGTATTCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
56209856 TTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAA
131 TTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAA
56209890 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *
56209955 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATT-CGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
* * *
56210020 TTTCAATTT-CATTTTTCAATTTCTGCATTTCAAAAAAAA
130 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-----AAA
*
56210059 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * *** * **
56210124 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATT-CGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*
56210185 TTTCAATTTCTGTTTT
130 TTTCAATTTCCGTTTT
56210201 CAAAAAATCA
Statistics
Matches: 445, Mismatches: 20, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
163 161 0.36
164 103 0.23
165 71 0.16
166 4 0.01
167 34 0.08
169 72 0.16
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (164 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
TTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAA
Found at i:56209991 original size:74 final size:76
Alignment explanation
Indices: 56209885--56210029 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
56209875 TTTTTGCCTT
*
56209885 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
56209947 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
56209959 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
56210024 AATTTC
66 AATTTC
56210030 ATTTTTCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:56210141 original size:72 final size:73
Alignment explanation
Indices: 56210057--56210563 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
56210047 TTTCAAAAAA
*
56210057 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
56210122 CTGTTTTC
66 CTGTTTTC
* * ** ** *
56210130 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
56210194 CTGTTTTC
66 CTGTTTTC
* * * ** *
56210202 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
56210267 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
56210278 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
56210343 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
56210357 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
56210421 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
56210434 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
56210499 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
56210526 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
56210564 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:56210380 original size:79 final size:76
Alignment explanation
Indices: 56210056--56210773 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
56210046 ATTTCAAAAA
** *
56210056 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
56210119 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
56210130 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
56210191 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
56210202 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
56210266 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
56210278 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
56210343 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
56210357 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
56210421 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
56210434 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
56210499 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
56210526 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
56210590 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
56210613 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
56210674 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
56210688 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
56210753 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
56210774 TAATGTCTGT
Statistics
Matches: 503, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:56210434 original size:14 final size:13
Alignment explanation
Indices: 56210415--56210450 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
56210405 TGTCGAGGTA
56210415 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
56210428 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
56210442 TTTTCAAAA
1 TTTTCAAAA
56210451 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:56210581 original size:30 final size:30
Alignment explanation
Indices: 56210545--56210606 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
56210535 CAACTCATAT
56210545 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
56210575 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
56210605 TG
1 TG
56210607 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:56210707 original size:254 final size:248
Alignment explanation
Indices: 56210196--56210774 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
56210186 TTCAATTTCT
* * *
56210196 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
56210261 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
56210322 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
56210387 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
56210441 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
56210505 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
56210570 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
56210632 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
56210695 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
56210759 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
56210775 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:56211420 original size:16 final size:16
Alignment explanation
Indices: 56211399--56211482 Score: 58
Period size: 16 Copynumber: 5.7 Consensus size: 16
56211389 CATTAAGCCC
56211399 CCCAAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
*
56211415 CCCAAAAAAAAAC-AA
1 CCCAAAAAAAACCTAA
** **
56211430 -AGAAAAAAAA-AGAA
1 CCCAAAAAAAACCTAA
56211444 ---AAAGAAAAACCT-A
1 CCCAAA-AAAAACCTAA
56211457 CCC-AAAAAAACCTAA
1 CCCAAAAAAAACCTAA
56211472 CCCAAAAAAAA
1 CCCAAAAAAAA
56211483 AAAGAAGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
12 3 0.06
13 6 0.11
14 18 0.33
15 8 0.15
16 19 0.35
ACGTcount: A:0.70, C:0.23, G:0.04, T:0.04
Consensus pattern (16 bp):
CCCAAAAAAAACCTAA
Found at i:56211466 original size:15 final size:15
Alignment explanation
Indices: 56211448--56211481 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
56211438 AAAGAAAAAG
56211448 AAAAACCT-ACCCAA
1 AAAAACCTAACCCAA
56211462 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
56211477 AAAAA
1 AAAAA
56211482 AAAAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.65, C:0.29, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:56218040 original size:18 final size:18
Alignment explanation
Indices: 56218019--56218057 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56218009 ATTATATATT
56218019 ATTTA-TTACATTCAGTTA
1 ATTTAGTTA-ATTCAGTTA
*
56218037 ATTTAGTTAATTCGGTTA
1 ATTTAGTTAATTCAGTTA
56218055 ATT
1 ATT
56218058 GGTCAATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (18 bp):
ATTTAGTTAATTCAGTTA
Found at i:56218627 original size:25 final size:26
Alignment explanation
Indices: 56218573--56218630 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
56218563 AAAATCTACT
56218573 CTAAAAA-GAAAAGAGAAAGCCTAAA
1 CTAAAAATGAAAAGAGAAAGCCTAAA
* *
56218598 TTAAAAATGAAAAGA-AAA-CCTAACC
1 CTAAAAATGAAAAGAGAAAGCCTAA-A
56218623 CTAAAAAT
1 CTAAAAAT
56218631 ATGGAAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.18
25 16 0.57
26 7 0.25
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (26 bp):
CTAAAAATGAAAAGAGAAAGCCTAAA
Found at i:56220499 original size:90 final size:90
Alignment explanation
Indices: 56220336--56220568 Score: 285
Period size: 90 Copynumber: 2.6 Consensus size: 90
56220326 TCAGTGAATG
* * * * * *
56220336 CATCAAGTTTGCCTCACTAGGACCACCCAAAGC-CTGGGATATGAA-TTCATTAAGAACATTTAG
1 CATCAAGTTTGTCTCAATAGGACCATCCAAA-CTCTGGGCTATGAACTT-ATTAAAAACATCTAG
* *
56220399 CGGCTTATCCTATAATTTTGGT-AAGTT
64 CAGCTTATCCTATAAATTTGGTGAAG-T
*
56220426 CATCAAGTTTGTCTCAATAGGACCATCCAAACTCTGGGCTATGAACTTATTAAAAACATCTAGTA
1 CATCAAGTTTGTCTCAATAGGACCATCCAAACTCTGGGCTATGAACTTATTAAAAACATCTAGCA
56220491 G-TTCATCCTATAAATTTGGTGAAGT
66 GCTT-ATCCTATAAATTTGGTGAAGT
* * * *
56220516 CATCAAGTCTGTCTTAGTAGGACCATCCAAACTCTGGGCTATGAACTCATTAA
1 CATCAAGTTTGTCTCAATAGGACCATCCAAACTCTGGGCTATGAACTTATTAA
56220569 GAGCACGGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
89 3 0.02
90 118 0.94
91 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (90 bp):
CATCAAGTTTGTCTCAATAGGACCATCCAAACTCTGGGCTATGAACTTATTAAAAACATCTAGCA
GCTTATCCTATAAATTTGGTGAAGT
Found at i:56224853 original size:40 final size:39
Alignment explanation
Indices: 56224742--56224855 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 39
56224732 ATAAGCATGT
* * *
56224742 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
*
56224782 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCG-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTA
*
56224822 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
56224856 TTTCCAGCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 62 0.95
41 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
Found at i:56224870 original size:40 final size:40
Alignment explanation
Indices: 56224742--56224892 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
56224732 ATAAGCATGT
* * * *
56224742 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCAC-CA
* ** * *
56224782 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
**
56224822 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
* * * *
56224862 GCATAATTGTCTTCGGGGCTT-AGCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
56224893 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 11 0.12
40 79 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
Found at i:56224876 original size:80 final size:79
Alignment explanation
Indices: 56224742--56224892 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 79
56224732 ATAAGCATGT
* *
56224742 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAG-C
56224807 CGGATATAGCCGCTA
65 CGGATATAGCCGCTA
* * ** * *
56224822 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
56224885 CCGGATAT
64 CCGGATAT
56224893 CATTCAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 11 0.18
80 50 0.82
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
GGATATAGCCGCTA
Found at i:56230277 original size:71 final size:71
Alignment explanation
Indices: 56230189--56230352 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
56230179 GAGATGTATC
56230189 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56230254 AGGACA
66 AGGACA
*
56230260 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56230325 AGGACA
66 AGGACA
56230331 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56230353 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56237335 original size:71 final size:71
Alignment explanation
Indices: 56237247--56237410 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
56237237 GAGATGTATC
56237247 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56237312 AGGACA
66 AGGACA
*
56237318 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
56237383 CGGACA
66 AGGACA
56237389 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56237411 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56241093 original size:18 final size:17
Alignment explanation
Indices: 56241048--56241093 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
56241038 GATTATGTAG
*
56241048 AAAGAATAAAGAAATGA
1 AAAGAAAAAAGAAATGA
*
56241065 AAATAATAAAAGAAATAGA
1 AAAGAA-AAAAGAAAT-GA
56241084 AAAGAAAAAA
1 AAAGAAAAAA
56241094 AAAAGTGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAAGAAATGA
Found at i:56242449 original size:29 final size:29
Alignment explanation
Indices: 56242416--56242488 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
56242406 GTGACAAGAT
*
56242416 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
56242445 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
56242474 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
56242489 AAGCTGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:56250864 original size:79 final size:81
Alignment explanation
Indices: 56250716--56250932 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 81
56250706 GAATCACGTA
* *** * **
56250716 CCTTCGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTATA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATA
56250778 GTAACTCGCACGAATG
66 GTAACTCGCACGAATG
* *
56250794 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-T
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
*
56250856 ATTAACTCGCACGAATG
65 AGTAACTCGCACGAATG
** * *
56250873 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
56250933 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 8 0.07
79 60 0.52
80 48 0.41
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATA
GTAACTCGCACGAATG
Found at i:56250932 original size:40 final size:39
Alignment explanation
Indices: 56250741--56250932 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 39
56250731 GGATATAACG
* ** *
56250741 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56250781 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
56250821 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56250860 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56250900 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56250933 CATCATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 83 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56253693 original size:13 final size:13
Alignment explanation
Indices: 56253675--56253699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56253665 TCACTACTAT
56253675 TACTATTATTATA
1 TACTATTATTATA
56253688 TACTATTATTAT
1 TACTATTATTAT
56253700 CATTTTTTAC
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:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TACTATTATTATA
Found at i:56254140 original size:20 final size:20
Alignment explanation
Indices: 56254106--56254143 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56254096 TTTTTAAAAT
**
56254106 TATTTTAAAGGAAAGTTTAA
1 TATTTTAAAACAAAGTTTAA
56254126 TATTTTAAAACAAAGTTT
1 TATTTTAAAACAAAGTTT
56254144 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (20 bp):
TATTTTAAAACAAAGTTTAA
Found at i:56254278 original size:147 final size:149
Alignment explanation
Indices: 56254051--56254474 Score: 539
Period size: 147 Copynumber: 2.8 Consensus size: 149
56254041 TTTTTTTTAA
* * *
56254051 AAAAAGGGAGAAAGTTTAGATTTTGAAAAAATAAAAATATGTTTTTTTTTAAAATTATTTTAAAG
1 AAAAA-GGAGAAAGTTTAGATTTTG-AAAAAT-AAAA-ATCTATTTTTTT-AAGTTATTTTAAAG
* * *
56254116 GAAAGTTTAATATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAAT
61 GAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTT-AACTATTTCAAAATAAAAACTTTAAT
*
56254181 ATTTAAGAAAAATAGTGTTTTTGTT
125 ATTTAAGAAAAATAATGTTTTTGTT
*
56254206 -AAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTT-AGTTATTTTAATGGAAAG
1 AAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTAAGTTATTTTAAAGGAAAG
* *
56254268 TTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTAACTACTTCAAAATAAAAACTTTAATCTTTA
66 TTTAAAATTTTAAAACAAAGTTTTGA-TTTTTTTAACTATTTCAAAATAAAAACTTTAATATTTA
* *
56254333 AGAAAAATAATTTTTTTTTT
130 AGAAAAATAATGTTTTTGTT
*
56254353 AAAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTACATTTTTTTTAAAGTCATTTTA
1 ----AAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCT--A-TTTTTTT-AAGTTATTTTA
* * * *
56254418 AAGGAAAGTTTAAATTTTTAAAATAAAGTTTTGATTTGTTTAACTATTTCGAAATAA
58 AAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAA
56254475 GGTTTTGATT
Statistics
Matches: 238, Mismatches: 19, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
147 85 0.36
148 7 0.03
149 10 0.04
150 4 0.02
151 6 0.03
152 22 0.09
153 32 0.13
154 4 0.02
155 1 0.00
156 7 0.03
157 20 0.08
158 40 0.17
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (149 bp):
AAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTAAGTTATTTTAAAGGAAAG
TTTAAAATTTTAAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAACTTTAATATTTAA
GAAAAATAATGTTTTTGTT
Found at i:56254533 original size:22 final size:21
Alignment explanation
Indices: 56254499--56254541 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
56254489 CGAAAAGTAA
* *
56254499 TGATTTTTTAAAATAAAATTT
1 TGATTTTTAAAAAAAAAATTT
56254520 TGATTTTGTAAAAAAAAAATTT
1 TGATTTT-TAAAAAAAAAATTT
56254542 AGCCACCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
TGATTTTTAAAAAAAAAATTT
Found at i:56256710 original size:42 final size:41
Alignment explanation
Indices: 56256648--56256772 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 41
56256638 TTCGTTTTCT
** * *
56256648 TGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
56256690 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
56256731 TCGATGCCATAGCCCAGCTATGGTCTTACACA-AATCACATA
1 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
56256772 T
1 T
56256773 CTCACTGATG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 10 0.13
42 65 0.87
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (41 bp):
TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:56256835 original size:47 final size:46
Alignment explanation
Indices: 56256732--56256854 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 46
56256722 ATTCATATAT
* * * * *
56256732 CGATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
* * *
56256778 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACA-AAGCACATATCACAC
*
56256825 CGATGCCATATCCCAGATATGGTATTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
56256855 GGAAATCACT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 27 0.41
47 39 0.59
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
Found at i:56256915 original size:31 final size:31
Alignment explanation
Indices: 56256880--56257028 Score: 199
Period size: 31 Copynumber: 4.8 Consensus size: 31
56256870 CTTGTCACTT
* *
56256880 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56256911 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56256942 GTAGCCGGAGCTACCACTTTTCACTGATCAC
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
56256973 GTAGCAGAAACTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56257004 GTAGCTGAAGCTACCACTTCTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
56257029 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56257114 original size:50 final size:51
Alignment explanation
Indices: 56257004--56257132 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
56256994 CACTAATCAG
* * *
56257004 GTAGCTGAAGCTACCACTTCTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
* * *
56257055 GTAGTCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGT
56257105 GTAGCCGAAGCTACCACTTATCACTTGT
1 GTAGCCGAAGCTACCACTTATCACTTGT
56257133 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 42 0.62
51 26 0.38
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
Found at i:56259333 original size:42 final size:41
Alignment explanation
Indices: 56259274--56259595 Score: 376
Period size: 42 Copynumber: 7.7 Consensus size: 41
56259264 TCGATTTGAT
* * *
56259274 ATTTACGTGTAAGACCATGTCTGAGACATCTACATCGTATCTG
1 ATTT-CGTGTAAGACCATGTCTGGGACAT-TGCATCGTATTTG
*
56259317 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATTTG
1 ATTTCGTGTAAGACCATGTCTGGGACATT-GCATCGTATTTG
* * *
56259359 ATTACGTGTAAGACCATGTCTGGGATAGTGGCATCGTATTTG
1 ATTTCGTGTAAGACCATGTCTGGGACA-TTGCATCGTATTTG
*
56259401 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATT-GCATCGTATTTG
* * * * * **
56259443 ACTACATGTAAGACCATTTCTGGGACATCGGCATCGTATCCG
1 ATTTCGTGTAAGACCATGTCTGGGACAT-TGCATCGTATTTG
* * * *
56259485 ATTTCATGTAAGACCATGTCTGAGACATCGGCATCGTATTTA
1 ATTTCGTGTAAGACCATGTCTGGGACAT-TGCATCGTATTTG
*
56259527 ATTTCGTGTAAGACCATGTTTGGGACATTAGCATCGTATTTG
1 ATTTCGTGTAAGACCATGTCTGGGACATT-GCATCGTATTTG
56259569 ATTTCGTGTAAGATCC-TGTCTGGGACA
1 ATTTCGTGTAAGA-CCATGTCTGGGACA
56259596 GAGGCATTGA
Statistics
Matches: 242, Mismatches: 31, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
41 2 0.01
42 233 0.96
43 7 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (41 bp):
ATTTCGTGTAAGACCATGTCTGGGACATTGCATCGTATTTG
Found at i:56259394 original size:84 final size:84
Alignment explanation
Indices: 56259276--56259645 Score: 431
Period size: 84 Copynumber: 4.4 Consensus size: 84
56259266 GATTTGATAT
* **
56259276 TTACGTGTAAGACCATGTCTGAGACATCTACATCGTATCTGATTTCGTGTAAGACCATGTCTGGG
1 TTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGG
*
56259341 ACATTGGCATCATATTTGA
66 ACATTGGCATCATATCTGA
* *
56259360 TTACGTGTAAGACCATGTCTGGGATAGT-GGCATCGTATTTGATTTCGTGTAAGACCATGTCTGG
1 TTACGTGTAAGACCATGTCTGGGACA-TCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGG
*
56259424 GACATTGGCATCGTATCTGA
65 GACATTGGCATCATATCTGA
* * * * * *
56259444 CTACATGTAAGACCATTTCTGGGACATCGGCATCGTATCCGATTTCATGTAAGACCATGTCTGAG
1 TTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGG
* * * *
56259509 ACATCGGCATCGTATTTAA
66 ACATTGGCATCATATCTGA
* * ** *
56259528 TTTCGTGTAAGACCATGTTTGGGACATTAGCATCGTATTTGATTTCGTGTAAGATCC-TGTCTGG
1 TTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGA-CCATGTCTGG
** *
56259592 GACAGAGGCATTGATA-CTGAA
65 GACATTGGCA-TCATATCTG-A
* * *
56259613 TTACATGTAAGACCACGTCTGGGACGTCGGCAT
1 TTACGTGTAAGACCATGTCTGGGACATCGGCAT
56259646 TATACCCGTT
Statistics
Matches: 239, Mismatches: 42, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
83 1 0.00
84 205 0.86
85 33 0.14
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
TTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGG
ACATTGGCATCATATCTGA
Found at i:56259428 original size:126 final size:125
Alignment explanation
Indices: 56259235--56259645 Score: 463
Period size: 126 Copynumber: 3.2 Consensus size: 125
56259225 ATCGAGATAT
* * * *
56259235 CATGTAAGACCGTGTCTAGGACA-CAGGCCTCG-ATTTGATATTTACGTGTAAGACCATGTCTGA
1 CATGTAAGACCATGTCTGGGACATC-GGCATCGTATTT-A-ATTT-CGTGTAAGACCATGTCTGG
* *
56259298 GACATCTACATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTA
62 GACAT-TACATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCATATCTGATTA
* * *
56259363 CGTGTAAGACCATGTCTGGGATAGT-GGCATCGTATTTGATTTCGTGTAAGACCATGTCTGGGAC
1 CATGTAAGACCATGTCTGGGACA-TCGGCATCGTATTTAATTTCGTGTAAGACCATGTCTGGGAC
* * * * * * * * *
56259427 ATTGGCATCGTATCTGACTACATGTAAGACCATTTCTGGGACATCGGCATCGTATCCGATTT
65 ATT-ACATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCATATCTGATTA
* *
56259489 CATGTAAGACCATGTCTGAGACATCGGCATCGTATTTAATTTCGTGTAAGACCATGTTTGGGACA
1 CATGTAAGACCATGTCTGGGACATCGGCATCGTATTTAATTTCGTGTAAGACCATGTCTGGGACA
* * *
56259554 TTAGCATCGTATTTGATTTCGTGTAAGATCC-TGTCTGGGACAGAGGCATTGATA-CTGAATTA
66 TTA-CATCGTATCTGATTTCGTGTAAGA-CCATGTCTGGGACATAGGCA-TCATATCTG-ATTA
* *
56259616 CATGTAAGACCACGTCTGGGACGTCGGCAT
1 CATGTAAGACCATGTCTGGGACATCGGCAT
56259646 TATACCCGTT
Statistics
Matches: 237, Mismatches: 37, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
125 2 0.01
126 167 0.70
127 39 0.16
128 25 0.11
129 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (125 bp):
CATGTAAGACCATGTCTGGGACATCGGCATCGTATTTAATTTCGTGTAAGACCATGTCTGGGACA
TTACATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATAGGCATCATATCTGATTA
Found at i:56268848 original size:79 final size:81
Alignment explanation
Indices: 56268739--56268921 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
56268729 TACTCGTTCA
* *
56268739 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
56268802 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
56268819 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
56268882 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
56268898 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56268922 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:56268921 original size:40 final size:40
Alignment explanation
Indices: 56268718--56268921 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
56268708 CGGAATTTAA
** *
56268718 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56268758 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56268798 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56268837 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56268877 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56268917 CCGGA
1 CCGGA
56268922 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.