Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 58 of 284
Found at i:20415770 original size:47 final size:47
Alignment explanation
Indices: 20415665--20415794 Score: 133
Period size: 47 Copynumber: 2.8 Consensus size: 47
20415655 TTATCTTGTA
* * *
20415665 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT
1 GCCGATGCATGTCCCAGACATATCTTAAACTAGCTCTCG-ATCAATGT
*
20415713 --CGATGCCATGTCCCAGACATCATCTTAAACTGGCTCTC-AT-AATGT
1 GCCGATG-CATGTCCCAGACAT-ATCTTAAACTAGCTCTCGATCAATGT
* * *
20415758 GGCCGATGCATGTCCGAGACATGTCTTACACTAGCTC
1 -GCCGATGCATGTCCCAGACATATCTTAAACTAGCTC
20415795 ACACTCAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
45 5 0.07
46 18 0.26
47 27 0.39
48 19 0.28
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATATCTTAAACTAGCTCTCGATCAATGT
Found at i:20424557 original size:45 final size:45
Alignment explanation
Indices: 20424492--20424582 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
20424482 ATGTACAAAG
20424492 ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
1 ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
*
20424537 ATATATAATATTAATGTAAGCATAATATCAAAAGAAATGGAGAAA
1 ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
20424582 A
1 A
20424583 GCGAAACTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.26
Consensus pattern (45 bp):
ATATATAATATTAATATAAGCATAATATCAAAAGAAATGGAGAAA
Found at i:20424818 original size:12 final size:11
Alignment explanation
Indices: 20424781--20424834 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
20424771 TCAAAAATAA
*
20424781 ATAAAAGAAAG
1 ATAAAATAAAG
20424792 ATAAAATGAAA-
1 ATAAAAT-AAAG
20424803 ATAAAGATAAAG
1 ATAAA-ATAAAG
*
20424815 ATAAAAATAAAA
1 AT-AAAATAAAG
20424827 ATAAAATA
1 ATAAAATA
20424835 GATGGACTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 20 0.54
12 14 0.38
13 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (11 bp):
ATAAAATAAAG
Found at i:20424823 original size:18 final size:17
Alignment explanation
Indices: 20424779--20424834 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
20424769 ATTCAAAAAT
*
20424779 AAAT-AAAAGAAAGATA
1 AAATAAAAATAAAGATA
*
20424795 AAATGAAAATAAAGATA
1 AAATAAAAATAAAGATA
*
20424812 AAGATAAAAATAAAAATA
1 AA-ATAAAAATAAAGATA
20424830 AAATA
1 AAATA
20424835 GATGGACTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.11
17 16 0.46
18 15 0.43
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (17 bp):
AAATAAAAATAAAGATA
Found at i:20424832 original size:6 final size:6
Alignment explanation
Indices: 20424794--20424832 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
20424784 AAAGAAAGAT
* * *
20424794 AAAATG AAAATA AAGATA AAGATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
20424833 TAGATGGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:20432211 original size:15 final size:15
Alignment explanation
Indices: 20432193--20432223 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20432183 AAACTCGTAC
20432193 AAACCAAATTCACAT
1 AAACCAAATTCACAT
*
20432208 AAACCAAATTCGCAT
1 AAACCAAATTCACAT
20432223 A
1 A
20432224 CATGAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCAAATTCACAT
Found at i:20432794 original size:86 final size:84
Alignment explanation
Indices: 20432641--20432796 Score: 192
Period size: 86 Copynumber: 1.8 Consensus size: 84
20432631 ATATCGCACA
* * * *
20432641 ATGCCAACGTCCCAGACGTGGCCTTACATGTAATCATATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGCCTTACATGTAAACATATATCGATGCCACTGTACTAGACAGAGT
20432706 CTTACACGAAACAAATACG
66 CTTACACGAAACAAATACG
* *
20432725 ATGCCAATGTCCCAGACATGGTCTTAC-TCGTAACCACATATATCGATGCCAAC-GTACTAGAC-
1 ATGCCAACGTCCCAGACATGGCCTTACAT-GTAA--ACATATATCGATGCC-ACTGTACTAGACA
20432787 GTAGTCTTAC
62 G-AGTCTTAC
20432797 TTGTACACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
83 1 0.02
84 28 0.46
85 1 0.02
86 29 0.48
87 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGCCTTACATGTAAACATATATCGATGCCACTGTACTAGACAGAGT
CTTACACGAAACAAATACG
Found at i:20436358 original size:39 final size:40
Alignment explanation
Indices: 20436263--20436524 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
20436253 TTGAATGATG
*
20436263 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20436301 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
20436342 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
20436381 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20436420 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
20436459 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
20436498 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20436525 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20444135 original size:46 final size:46
Alignment explanation
Indices: 20444000--20444172 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
20443990 GGGTTAAATG
* * * *
20444000 CTGATGCCATGTTCTAGACATGGTCTTACACTGA-CTATCATCTCTTAG-
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGACCTA-CGTCTC-AAGA
* * * *
20444048 CCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGG
1 CTGATGCATGTCCCAGACATGTCTTACACTGACCTACGTCTCAAGA
* *
20444094 CTGATGCATGTCCCAGACATGTCTTACACTAGCCCTA-GTCTCAATA
1 CTGATGCATGTCCCAGACATGTCTTACACT-GACCTACGTCTCAAGA
*
20444140 CTGATGTCATGTCCCGGACATGGTCTTACACTG
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTG
20444173 GCTTACTCTG
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.02
46 58 0.54
47 32 0.30
48 15 0.14
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGACCTACGTCTCAAGA
Found at i:20446299 original size:6 final size:6
Alignment explanation
Indices: 20446283--20446342 Score: 63
Period size: 6 Copynumber: 10.3 Consensus size: 6
20446273 AAGTAAAAAC
* * *
20446283 AAATAA CAATAA AAATAA AAA-AA AAGTAA AAGTAA AAATAA AAAT--
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
20446328 AAATAA AACATAA AA
1 AAATAA AA-ATAA AA
20446343 CTGAATGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 32 0.70
7 6 0.13
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:20446318 original size:23 final size:21
Alignment explanation
Indices: 20446262--20446335 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 21
20446252 ATAAATCCGG
*
20446262 AAAATAAAAT-AAAGTAAAAA
1 AAAATAAAATAAAAATAAAAA
*
20446282 CAAATAACAATAAAAATAAAAA
1 AAAATAA-AATAAAAATAAAAA
20446304 AAAAGTAAAAGTAAAAATAAAAA
1 AAAA-TAAAA-TAAAAATAAAAA
*
20446327 TAAATAAAA
1 AAAATAAAA
20446336 CATAAAACTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.13
21 3 0.07
22 19 0.41
23 18 0.39
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAATAAAATAAAAATAAAAA
Found at i:20446341 original size:23 final size:22
Alignment explanation
Indices: 20446262--20446342 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
20446252 ATAAATCCGG
*
20446262 AAAAT-AAAAT-AAAGTAAAAA
1 AAAATAAAAATAAAAATAAAAA
* *
20446282 CAAATAACAATAAAAATAAAAA
1 AAAATAAAAATAAAAATAAAAA
*
20446304 AAAAGTAAAAGTAAAAATAAAAA
1 AAAA-TAAAAATAAAAATAAAAA
*
20446327 TAAATAAAACATAAAA
1 AAAATAAAA-ATAAAA
20446343 CTGAATGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.08
21 4 0.08
22 17 0.35
23 24 0.49
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAAA
Found at i:20447711 original size:605 final size:605
Alignment explanation
Indices: 20446578--20447740 Score: 2040
Period size: 605 Copynumber: 1.9 Consensus size: 605
20446568 TACTGCTACG
*
20446578 TGCGATAGATGTCCCTAAGCATGACTGAATATGAGCAGTGGAGTGACTCAGAGGAGGAGAAGATC
1 TGCGATAGATGTCCCTAAACATGACTGAATATGAGCAGTGGAGTGACTCAGAGGAGGAGAAGATC
*
20446643 AGGCTGAGTCTGCATGTTGACGTGGGTCCTCTTCTGGGAGCTCCACATGCCCATTCTTAGGATTC
66 AGGCTGAGTCTCCATGTTGACGTGGGTCCTCTTCTGGGAGCTCCACATGCCCATTCTTAGGATTC
* * **
20446708 GAGTGAAATAGTGTATACCAATTTGGACCCACTTTGTTCTGACATTGAATCATCTGCATGTGGTT
131 GAGTGAAATAGTGTATACCAATTTGGACCCACTTTATGCTGACATTGAATCATCCACATGTGGTT
* *
20446773 CATAATAAATAACCCTTACGGGATCATCAGTCCCATTAGAATGAAGGATGAAGTCTATTCTGAAG
196 CATAATAAATAACCCTTACAGGACCATCAGTCCCATTAGAATGAAGGATGAAGTCTATTCTGAAG
20446838 TGTCAAGAAGCCCAAAGTACCTCATTAGACGAGTCACGTAGGGACCCATACAGATAAGGCCCTTC
261 TGTCAAGAAGCCCAAAGTACCTCATTAGACGAGTCACGTAGGGACCCATACAGATAAGGCCCTTC
20446903 CTGTTTCGATCGGGCTGGTGGCAACAACAGTGAACCATGAAGTAAGTGACATCGACTGGGTGGCA
326 CTGTTTCGATCGGGCTGGTGGCAACAACAGTGAACCATGAAGTAAGTGACATCGACTGGGTGGCA
20446968 TGTCTCCATACTCCATTAGAAATAGGTGTCCGAAGTACTAACAACCCTCATTCTCTCCTTCCAAC
391 TGTCTCCATACTCCATTAGAAATAGGTGTCCGAAGTACTAACAACCCTCATTCTCTCCTTCCAAC
*
20447033 TAGTCAAATGTGTGGCCTAGAATGATATGAAAATAGCGCAAAGCTGAAGGTAAGCATATTGCCTT
456 TAGTCAAATGTGTGGCCTAGAATGATATGAAAATAGCGCAAAGCTAAAGGTAAGCATATTGCCTT
* * *
20447098 TGACTTACTTGGGTTATATTGTGACTTAGACTCGCTAACTGTTGTTCCTTAAGGTGGTACATCTT
521 TAACTTACTTGGGTTATATTGTGACTCAGACTAGCTAACTGTTGTTCCTTAAGGTGGTACATCTT
20447163 CTCGGACTGCTACTATTATA
586 CTCGGACTGCTACTATTATA
* *
20447183 TGCGATAGATGTCCCTAAACATGACTGAATATGAGCAGTGGAGTGACTCAGAGGAGGAGAGGATT
1 TGCGATAGATGTCCCTAAACATGACTGAATATGAGCAGTGGAGTGACTCAGAGGAGGAGAAGATC
* *
20447248 AGGCTGAGTCTCCATGTTGAGGTGGGTCCTCTTCTGGGAGCTCCACATGCCCATTCTTGGGATTC
66 AGGCTGAGTCTCCATGTTGACGTGGGTCCTCTTCTGGGAGCTCCACATGCCCATTCTTAGGATTC
* * * * *
20447313 GGGTGGAATAGTGTATACCAATTTGGACGCACTTTATGCTTATATTGAATCATCCACATGTGGTT
131 GAGTGAAATAGTGTATACCAATTTGGACCCACTTTATGCTGACATTGAATCATCCACATGTGGTT
*
20447378 CATAATAGATAACCCTTACAGGACCATCAGTCCCATTAGAATGAAGGATGAAGTCTACTTC-GAA
196 CATAATAAATAACCCTTACAGGACCATCAGTCCCATTAGAATGAAGGATGAAGTCTA-TTCTGAA
* *
20447442 GTGTCGAGAAGCCCAAAGTACCTCATTAGATGAGTCACGTAGGGACCCATACAGATAAGGCCCTT
260 GTGTCAAGAAGCCCAAAGTACCTCATTAGACGAGTCACGTAGGGACCCATACAGATAAGGCCCTT
*
20447507 CCTGTTTCGATCGGGCTGGTGGCAACAACAGTGAACCATGAAGTAAGTGACATTGACTGGGTGGC
325 CCTGTTTCGATCGGGCTGGTGGCAACAACAGTGAACCATGAAGTAAGTGACATCGACTGGGTGGC
* * *
20447572 ATGTCTCCATACTCCATTAGAAATAGGTGTCCGAAGTACTAACGACCCTCGTTCTCTCCTTCCGA
390 ATGTCTCCATACTCCATTAGAAATAGGTGTCCGAAGTACTAACAACCCTCATTCTCTCCTTCCAA
* *
20447637 CTAGTCAAATGTGTGGGCTAGAATGATATGAAAATAGTGCAAAGCTAAAGGTAAGCATATTGCCT
455 CTAGTCAAATGTGTGGCCTAGAATGATATGAAAATAGCGCAAAGCTAAAGGTAAGCATATTGCCT
20447702 TTAACTTACTTGGGTTATATTGTGACTCAGACTAGCTAA
520 TTAACTTACTTGGGTTATATTGTGACTCAGACTAGCTAA
20447741 TGTGGGACCA
Statistics
Matches: 527, Mismatches: 30, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
605 524 0.99
606 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (605 bp):
TGCGATAGATGTCCCTAAACATGACTGAATATGAGCAGTGGAGTGACTCAGAGGAGGAGAAGATC
AGGCTGAGTCTCCATGTTGACGTGGGTCCTCTTCTGGGAGCTCCACATGCCCATTCTTAGGATTC
GAGTGAAATAGTGTATACCAATTTGGACCCACTTTATGCTGACATTGAATCATCCACATGTGGTT
CATAATAAATAACCCTTACAGGACCATCAGTCCCATTAGAATGAAGGATGAAGTCTATTCTGAAG
TGTCAAGAAGCCCAAAGTACCTCATTAGACGAGTCACGTAGGGACCCATACAGATAAGGCCCTTC
CTGTTTCGATCGGGCTGGTGGCAACAACAGTGAACCATGAAGTAAGTGACATCGACTGGGTGGCA
TGTCTCCATACTCCATTAGAAATAGGTGTCCGAAGTACTAACAACCCTCATTCTCTCCTTCCAAC
TAGTCAAATGTGTGGCCTAGAATGATATGAAAATAGCGCAAAGCTAAAGGTAAGCATATTGCCTT
TAACTTACTTGGGTTATATTGTGACTCAGACTAGCTAACTGTTGTTCCTTAAGGTGGTACATCTT
CTCGGACTGCTACTATTATA
Found at i:20449687 original size:48 final size:48
Alignment explanation
Indices: 20449616--20449810 Score: 266
Period size: 48 Copynumber: 4.1 Consensus size: 48
20449606 ACTCAGAAGT
* * ** *
20449616 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCTGAATCAAT-AAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
*
20449663 GCTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATTAATGTAA
1 -CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
*
20449712 CTCGCACCCTAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
* * * * *
20449760 CTTGCACCTGAAGTACTAATATTATAGCCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
20449808 CTC
1 CTC
20449811 ACAATAACAT
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
48 129 0.98
49 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
Found at i:20450139 original size:95 final size:94
Alignment explanation
Indices: 20449992--20450165 Score: 303
Period size: 95 Copynumber: 1.8 Consensus size: 94
20449982 AAAAAACAGA
*
20449992 AAAATGAGTCAATCAATCCAAAACTTGGTCTTTCCTCGAACTAAGTCCGAATTTCACTTTTCTTG
1 AAAACGAGTCAATCAATCCAAAACTTGGTCTTTCCTCGAACTAAGTCCGAATTTCACTTTTCTTG
20450057 ATCTATATAATACCGGATACAAAAAGGGC
66 ATCTATATAATACCGGATACAAAAAGGGC
* * *
20450086 AAAACGAGTCAATCAATCCAAAACCTTGGTCTTTCCTCGATCTAAGTCTGAATTTCGCTTTTCTT
1 AAAACGAGTCAATCAATCCAAAA-CTTGGTCTTTCCTCGAACTAAGTCCGAATTTCACTTTTCTT
20450151 GATCTATATAATACC
65 GATCTATATAATACC
20450166 AAATTTAGCT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 22 0.29
95 53 0.71
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (94 bp):
AAAACGAGTCAATCAATCCAAAACTTGGTCTTTCCTCGAACTAAGTCCGAATTTCACTTTTCTTG
ATCTATATAATACCGGATACAAAAAGGGC
Found at i:20452039 original size:46 final size:47
Alignment explanation
Indices: 20451986--20452110 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 47
20451976 TATGTGTGCT
* *
20451986 AGTGTAAGACATGTCTGAGACATGCATC-GGCT-ACAT-TACGAGAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCTCACATATAC-A-ACCC
* *
20452032 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAACCC
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCTC-ACATATACAACCC
20452080 AGTGTAAGACATGTCTGAGACATGCATCAGC
1 AGTGTAAGACATGTCTGAGACATGCATCAGC
20452111 ATTGAGACGA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
46 27 0.39
47 3 0.04
48 33 0.47
49 4 0.06
50 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGAGACATGCATCAGCCTCACATATACAACCC
Found at i:20452135 original size:94 final size:94
Alignment explanation
Indices: 20451986--20452206 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 94
20451976 TATGTGTGCT
* * * * *
20451986 AGTGTAAGACATGTCTGAGACATGCATCGGCTACATTACGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGAGACATGCATCAGCTACATGACGAGAGCCAGTATAAGACATGCCTAGG
*
20452051 ACATGCATCAGCCTCGAGATATACAACCC
66 ACATACATCAGCCTCGAGATATACAACCC
** * *
20452080 AGTGTAAGACATGTCTGAGACATGCATCAGCATTGA-GACGAGATCTAGTATAAGACATGCCTAG
1 AGTGTAAGACATGTCTGAGACATGCATCAGC-TACATGACGAGAGCCAGTATAAGACATGCCTAG
** * *
20452144 GATGTACATCAGCCTCGAGATATACAAGCT
65 GACATACATCAGCCTCGAGATATACAACCC
* *
20452174 AGTGTAAGA-ACTGTCTGGGACATGGCGTCAGCT
1 AGTGTAAGACA-TGTCTGAGACAT-GCATCAGCT
20452207 TGTTGCATGT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 1 0.01
94 98 0.91
95 9 0.08
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGAGACATGCATCAGCTACATGACGAGAGCCAGTATAAGACATGCCTAGG
ACATACATCAGCCTCGAGATATACAACCC
Found at i:20452286 original size:49 final size:49
Alignment explanation
Indices: 20452150--20452343 Score: 147
Period size: 49 Copynumber: 4.1 Consensus size: 49
20452140 CTAGGATGTA
* * * *
20452150 CATCAGCCTCGAGATAT-ACAAGCTAGTGTAAGAACTGTCTGGGACATGG
1 CATCAGCCTCGATATATGA-AAGCCAGTGTAAGACCTTTCTGGGACATGG
* * * * * *
20452199 CGTCAG-CT---TGT-TGCATGTCAGTGTAAGACCTGTCTGGGACATGG
1 CATCAGCCTCGATATATGAAAGCCAGTGTAAGACCTTTCTGGGACATGG
* *
20452243 CATC-GACAC-CGATATATGAGAA-CCAGTGTAAGACCTTTTTGGGACATGA
1 CATCAG-C-CTCGATATATGA-AAGCCAGTGTAAGACCTTTCTGGGACATGG
* *
20452292 CATCAGCCTCGATATATGAAAGTCAGTGTAAGA-CTTGTCTAGGACATGG
1 CATCAGCCTCGATATATGAAAGCCAGTGTAAGACCTT-TCTGGGACATGG
20452341 CAT
1 CAT
20452344 TGACTTTGAT
Statistics
Matches: 112, Mismatches: 20, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
43 1 0.01
44 30 0.27
45 1 0.01
46 1 0.01
48 10 0.09
49 67 0.60
50 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (49 bp):
CATCAGCCTCGATATATGAAAGCCAGTGTAAGACCTTTCTGGGACATGG
Found at i:20455999 original size:29 final size:27
Alignment explanation
Indices: 20455981--20456050 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
20455971 ATATTAAGTC
20455981 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
20456008 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
20456036 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
20456051 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:20456044 original size:28 final size:28
Alignment explanation
Indices: 20455981--20456078 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
20455971 ATATTAAGTC
*
20455981 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20456008 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20456036 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20456065 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20456079 CAATCTAATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20471522 original size:5 final size:5
Alignment explanation
Indices: 20471512--20471541 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
20471502 AATAATAAAA
20471512 AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
20471542 GTAAGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:20473878 original size:48 final size:48
Alignment explanation
Indices: 20473807--20473983 Score: 266
Period size: 48 Copynumber: 3.7 Consensus size: 48
20473797 CCTAAGTGCC
* *
20473807 AATATCATGTCCTGAAGCCAAATCAATG-AAGCTCGCACCCGAAGTACT
1 AATATCATGGCCCGAAGCCAAATCAATGTAA-CTCGCACCCGAAGTACT
* * *
20473855 AATATCATGGCCCGAAGCCAAATCAATGTAACTTGCACCTGAAGTGCT
1 AATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTACT
* *
20473903 AATATCATGGTCCGAAGCCAAATCAATGTAACCCGCACCCGAAGTACT
1 AATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTACT
*
20473951 AATATCATGGTCCGAAGCCAAATCAATGTAACT
1 AATATCATGGCCCGAAGCCAAATCAATGTAACT
20473984 TGTAATAACA
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 115 0.98
49 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (48 bp):
AATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAAGTACT
Found at i:20473966 original size:96 final size:95
Alignment explanation
Indices: 20473796--20473985 Score: 312
Period size: 96 Copynumber: 2.0 Consensus size: 95
20473786 AAGTCTCACA
*
20473796 ACCTAAGTGCCAATATCATGTCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAGTACTAATATC
1 ACCTAAGTGCCAATATCATGTCCTGAAGCCAAATCAATGAAGCCCGCACCCGAAGTACTAATATC
20473861 ATGGCCCGAAGCCAAATCAATGTAACTTGC
66 ATGGCCCGAAGCCAAATCAATGTAACTTGC
*
20473891 ACCTGAAGTGCTAATATCATGGTCC-GAAGCCAAATCAATGTAA-CCCGCACCCGAAGTACTAAT
1 ACCT-AAGTGCCAATATCAT-GTCCTGAAGCCAAATCAATG-AAGCCCGCACCCGAAGTACTAAT
*
20473954 ATCATGGTCCGAAGCCAAATCAATGTAACTTG
63 ATCATGGCCCGAAGCCAAATCAATGTAACTTG
20473986 TAATAACATG
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
95 4 0.04
96 79 0.89
97 6 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (95 bp):
ACCTAAGTGCCAATATCATGTCCTGAAGCCAAATCAATGAAGCCCGCACCCGAAGTACTAATATC
ATGGCCCGAAGCCAAATCAATGTAACTTGC
Found at i:20476434 original size:43 final size:43
Alignment explanation
Indices: 20476329--20476499 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
20476319 CATAAAGCTC
* * * **
20476329 ATACAATGCCATAT-TCCAAGATATGGTCTTACATGCTATCAC-
1 ATACAATGCCA-ATGTCCCAGACATGGTCTTACACGAAATCACA
* * * *
20476371 ATATCGATG-CACTGTCCCAGACAGGGTCTTACACGAAATCA-T
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
* * *
20476413 ATAACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
* *
20476457 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
20476500 TCTCGATAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 32 0.30
43 72 0.67
44 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
Found at i:20477181 original size:24 final size:24
Alignment explanation
Indices: 20477149--20477196 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20477139 ATCATCTCCG
*
20477149 CTTAATTATGACAAATGTACTCTT
1 CTTAATTATGACAAAAGTACTCTT
20477173 CTTAATTATGACAAAAGTACTCTT
1 CTTAATTATGACAAAAGTACTCTT
20477197 ACGCAAGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (24 bp):
CTTAATTATGACAAAAGTACTCTT
Found at i:20481317 original size:52 final size:52
Alignment explanation
Indices: 20481257--20481360 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
20481247 TAATAAGCAT
20481257 TAGAAATAAGTAAAATAGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
1 TAGAAATAAGTAAAATAGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
*
20481309 TAGAAATAAGTAAAATAGAAGTGAAAGGAGTAAACAAACGCTACGGGAAAGA
1 TAGAAATAAGTAAAATAGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
20481361 GATTTAGTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.55, C:0.07, G:0.25, T:0.13
Consensus pattern (52 bp):
TAGAAATAAGTAAAATAGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
Found at i:20481382 original size:52 final size:52
Alignment explanation
Indices: 20481258--20481383 Score: 159
Period size: 52 Copynumber: 2.4 Consensus size: 52
20481248 AATAAGCATT
*
20481258 AGAAATAAGTAAAATA-GAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
1 AGAAATAAGTAAAAAATGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
* *
20481309 TAGAAATAAGTAAAATA-GAAGTGAAAGGAGTAAACAAACGCTACGGGAAAG-
1 -AGAAATAAGTAAAAAATGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
** *
20481360 AGATTTAGTGTAAAAAATGAAGTG
1 AGAAATA-AGTAAAAAATGAAGTG
20481384 GGAAGCGGCG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 5 0.07
51 7 0.10
52 55 0.82
ACGTcount: A:0.53, C:0.06, G:0.25, T:0.16
Consensus pattern (52 bp):
AGAAATAAGTAAAAAATGAAGTGAAAGGAGTAAACAAACGCTAAGGGAAAGA
Found at i:20489941 original size:3 final size:3
Alignment explanation
Indices: 20489933--20489957 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20489923 AGACTAAACT
20489933 AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC A
20489958 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:20492373 original size:109 final size:109
Alignment explanation
Indices: 20492245--20492474 Score: 383
Period size: 109 Copynumber: 2.1 Consensus size: 109
20492235 AGTACAGGTC
*
20492245 ACACGCCCGTGTAAATAGGCCGTGTACCTCACACAG-CATTAGACACGCCCGTGTGTCTAGGCCA
1 ACACACCCGTGTAAATAGGCCGTGTACCTCACA-AGACATTAGACACGCCCGTGTGTCTAGGCCA
20492309 CATCAAAACAGGGCATACATATTGACTTGCTCACACGGCCACAAG
65 CATCAAAACAGGGCATACATATTGACTTGCTCACACGGCCACAAG
* * *
20492354 ACACACCCGTGTAAATAGGCTGTGTACCTCACATGACATTAGACACGCCCGTGTGTCTAGGCCGC
1 ACACACCCGTGTAAATAGGCCGTGTACCTCACAAGACATTAGACACGCCCGTGTGTCTAGGCCAC
*
20492419 GTCAAAACAGGGCATACATATTGACTTGCTCACACGGCCACAAG
66 ATCAAAACAGGGCATACATATTGACTTGCTCACACGGCCACAAG
20492463 ACA-AGCCCGTGT
1 ACACA-CCCGTGT
20492475 GCCTTGGCCT
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
108 2 0.02
109 112 0.98
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (109 bp):
ACACACCCGTGTAAATAGGCCGTGTACCTCACAAGACATTAGACACGCCCGTGTGTCTAGGCCAC
ATCAAAACAGGGCATACATATTGACTTGCTCACACGGCCACAAG
Found at i:20503683 original size:33 final size:33
Alignment explanation
Indices: 20503637--20503707 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
20503627 GTACTTAGTC
* *
20503637 ACCCTTTCGAACACTTTTGCTAAATCAATCAAA
1 ACCCTTCCAAACACTTTTGCTAAATCAATCAAA
*
20503670 ACCCTTCCAAACACTTTTGCTAAATTAATCAAA
1 ACCCTTCCAAACACTTTTGCTAAATCAATCAAA
20503703 ACCCT
1 ACCCT
20503708 AACTTCTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.30
Consensus pattern (33 bp):
ACCCTTCCAAACACTTTTGCTAAATCAATCAAA
Found at i:20506613 original size:47 final size:47
Alignment explanation
Indices: 20506556--20506682 Score: 191
Period size: 47 Copynumber: 2.7 Consensus size: 47
20506546 ATCGACAAGC
* * * *
20506556 ACCTACACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCGAAGT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAAT
*
20506603 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCAAAAT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAAT
* *
20506650 ACCTATATCATGGCCCGTAGCAAAATCAAGGTA
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTA
20506683 TTATTAGCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (47 bp):
ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAAT
Found at i:20514241 original size:47 final size:47
Alignment explanation
Indices: 20514187--20514312 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
20514177 TCAATAAGTG
* ** *
20514187 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATAC-CGGAGTA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCAT-CTCAAAATA
* * *
20514234 CCTATACCATAGCCCGTAGCCAAGTCAAGGTAACTCCTCTCAAAATA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAATA
* *
20514281 CCTATATCATGGCCCGTTGCCAAATCAAGGTA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTA
20514313 TTATTAGCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 1 0.01
47 66 0.99
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (47 bp):
CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAATA
Found at i:20518851 original size:43 final size:42
Alignment explanation
Indices: 20518715--20518870 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
20518705 ACTGAGACTA
* *
20518715 CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATTA
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
* * *
20518757 CGTGTAAGACTATATCTGGGATATGGCATCGATATGAGACTT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
* * * * *
20518799 CGTGTAAGACCATAGCTGGGCTATTGGGATCGATACGAGATTT
1 CATGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTT
* *
20518842 CATGGAAGACCATATCTAGGATATGGCAT
1 CATGTAAGACCATATCTGGGATATGGCAT
20518871 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 62 0.65
43 34 0.35
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
Found at i:20518889 original size:85 final size:84
Alignment explanation
Indices: 20518707--20518870 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 84
20518697 TTAGGGTTAC
* * * * * * *
20518707 TGAGACTACATGTAAGACCATATCTGGGATATGGCATCAATATGAGATTACGTGTAAGACTATAT
1 TGAGACTTCGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGATTACATGGAAGACCATAT
*
20518772 CTGGGATATGGCATCGATA
66 CTAGGATATGGCATCGATA
* * * *
20518791 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGGATCGATACGAGATTTCATGGAAGACCATA
1 TGAGACTTCGTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGATTACATGGAAGACCATA
20518856 TCTAGGATATGGCAT
65 TCTAGGATATGGCAT
20518871 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 27 0.40
85 40 0.60
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (84 bp):
TGAGACTTCGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGATTACATGGAAGACCATAT
CTAGGATATGGCATCGATA
Found at i:20524748 original size:34 final size:34
Alignment explanation
Indices: 20524710--20524776 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
20524700 CATCAATTTC
* *
20524710 CTTC-ATTCAAACACATACCATAATCTTACCAATT
1 CTTCAATT-AAACACAAACCAAAATCTTACCAATT
*
20524744 CTTCAATTAAGCACAAACCAAAATCTTACCAAT
1 CTTCAATTAAACACAAACCAAAATCTTACCAAT
20524777 ATTACCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.42, C:0.28, G:0.01, T:0.28
Consensus pattern (34 bp):
CTTCAATTAAACACAAACCAAAATCTTACCAATT
Found at i:20525456 original size:43 final size:43
Alignment explanation
Indices: 20525407--20525555 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 43
20525397 AATGCCAACA
* *
20525407 TCCCAGACGTGGTCTTACATGTAATCAAATATCGACGCCACTG
1 TCCCAGACGTGGTCTTACACGTAATCAAATATCGAAGCCACTG
* * *
20525450 TCCCAGACAG-GGTCTTACACGAAATCAAATA-CGATGTCGA-TG
1 TCCCAGAC-GTGGTCTTACACGTAATCAAATATCGAAG-CCACTG
* * *
20525492 TTCCAGACATGGTCTTACACGTAACTCTTAA-ATCGAAGCCAAC-G
1 TCCCAGACGTGGTCTTACACGTAA-TC-AAATATCGAAGCC-ACTG
* *
20525536 TCCCAGACGCGGTTTTACAC
1 TCCCAGACGTGGTCTTACAC
20525556 AATAACCCAT
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
42 26 0.31
43 33 0.39
44 25 0.30
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGTAATCAAATATCGAAGCCACTG
Found at i:20538053 original size:27 final size:27
Alignment explanation
Indices: 20538023--20538174 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
20538013 ATATTAAGTC
* *
20538023 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
20538050 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
20538078 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
20538105 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
20538132 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
20538160 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20538175 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:20538091 original size:55 final size:54
Alignment explanation
Indices: 20538023--20538174 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
20538013 ATATTAAGTC
* *
20538023 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
20538078 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
20538132 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
20538175 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:20538160 original size:82 final size:82
Alignment explanation
Indices: 20538023--20538174 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
20538013 ATATTAAGTC
* *
20538023 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
20538088 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
20538105 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
20538170 GTGCT
66 GTGCT
20538175 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:20543697 original size:47 final size:47
Alignment explanation
Indices: 20543646--20543737 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
20543636 GAATGATTTT
20543646 GCCATGCATATCTGTTTATTCTGATATCTGTACATAGCTTGCTGATC
1 GCCATGCATATCTGTTTATTCTGATATCTGTACATAGCTTGCTGATC
*
20543693 GCCATGCATATCTGTTTATTCTGATATCTGTTCATAGCTTGCTGA
1 GCCATGCATATCTGTTTATTCTGATATCTGTACATAGCTTGCTGA
20543738 GCATGTCTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (47 bp):
GCCATGCATATCTGTTTATTCTGATATCTGTACATAGCTTGCTGATC
Found at i:20555063 original size:25 final size:24
Alignment explanation
Indices: 20555034--20555089 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
20555024 TAGGGATACT
* *
20555034 AAATAATCAGAAAAATAACATAAAG
1 AAATAAACAG-AAAATAAAATAAAG
*
20555059 AAATAAACTGAAAATAAAATAAA-
1 AAATAAACAGAAAATAAAATAAAG
20555082 ATAATAAA
1 A-AATAAA
20555090 TAATAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 8 0.30
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (24 bp):
AAATAAACAGAAAATAAAATAAAG
Found at i:20555096 original size:15 final size:15
Alignment explanation
Indices: 20555080--20555123 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
20555070 AAATAAAATA
20555080 AAAT-AATAAATAAT
1 AAATAAATAAATAAT
20555094 AAATAAATAAATAA-
1 AAATAAATAAATAAT
20555108 AAATTAAATAAGATAA
1 AAA-TAAATAA-ATAA
20555124 AGAAAAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.26
15 16 0.59
16 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:20555129 original size:19 final size:19
Alignment explanation
Indices: 20555054--20555129 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
20555044 AAAAATAACA
* *
20555054 TAAAGAAATAAACTGAAAAT
1 TAAATAAATAAA-TAAAAAT
*
20555074 AAAATAAA-ATAATAAATAA-
1 TAAATAAATA-AATAAA-AAT
20555093 TAAATAAATAAATAAAAAT
1 TAAATAAATAAATAAAAAT
*
20555112 TAAATAAGATAAAGAAAA
1 TAAATAA-ATAAATAAAA
20555130 GGGTAAAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
18 2 0.04
19 24 0.52
20 20 0.43
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.21
Consensus pattern (19 bp):
TAAATAAATAAATAAAAAT
Found at i:20560947 original size:48 final size:48
Alignment explanation
Indices: 20560873--20561059 Score: 257
Period size: 48 Copynumber: 3.9 Consensus size: 48
20560863 CATTAGGGAA
** *
20560873 TACATTGATTTGGCTTCGGGTAATGATATTGGCATTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * * * *
20560921 TACATTGATTTGGCTTCGGGCTATGATATTGGGACTTCCGATGCAAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
*
20560969 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGA
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * * *
20561017 TATATTGAGTTGGCTTCGGGCCATGATATTGGCATTTAGGGTG
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTG
20561060 AGAGACTCTT
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 122 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.35
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
Found at i:20560999 original size:24 final size:24
Alignment explanation
Indices: 20560972--20561047 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
20560962 TGCAAGTTAC
20560972 ATTGATTTGGCTTCGGGCCATGAT
1 ATTGATTTGGCTTCGGGCCATGAT
* * * *
20560996 ATTGGCACTTCGGGTGCGAG--AT-AT
1 ATT-G-A-TTTGGCTTCGGGCCATGAT
*
20561020 ATTGAGTTGGCTTCGGGCCATGAT
1 ATTGATTTGGCTTCGGGCCATGAT
20561044 ATTG
1 ATTG
20561048 GCATTTAGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 12
0.64 0.16 0.21
Matches are distributed among these distances:
21 7 0.19
22 1 0.03
23 3 0.08
24 14 0.38
25 3 0.08
26 1 0.03
27 8 0.22
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (24 bp):
ATTGATTTGGCTTCGGGCCATGAT
Found at i:20561037 original size:96 final size:96
Alignment explanation
Indices: 20560873--20561048 Score: 289
Period size: 96 Copynumber: 1.8 Consensus size: 96
20560863 CATTAGGGAA
* * * *
20560873 TACATTGATTTGGCTTCGGGTAATGATATTGGCATTTCGGGTGCGAGTTACATTGATTTGGCTTC
1 TACATTGATTTGGCTTCGGGCAATGATATTGGCACTTCGGGTGCGAGATACATTGAGTTGGCTTC
*
20560938 GGGCTATGATATTGGGACTTCCGATGCAAGT
66 GGGCCATGATATTGGGACTTCCGATGCAAGT
* *
20560969 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGATATATTGAGTTGGCTTC
1 TACATTGATTTGGCTTCGGGCAATGATATTGGCACTTCGGGTGCGAGATACATTGAGTTGGCTTC
20561034 GGGCCATGATATTGG
66 GGGCCATGATATTGG
20561049 CATTTAGGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.35
Consensus pattern (96 bp):
TACATTGATTTGGCTTCGGGCAATGATATTGGCACTTCGGGTGCGAGATACATTGAGTTGGCTTC
GGGCCATGATATTGGGACTTCCGATGCAAGT
Found at i:20561840 original size:14 final size:15
Alignment explanation
Indices: 20561821--20561850 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20561811 GAGATTGTGA
20561821 GAATT-GTATGTTTT
1 GAATTGGTATGTTTT
20561835 GAATTGGTATGTTTT
1 GAATTGGTATGTTTT
20561850 G
1 G
20561851 TGCCTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
GAATTGGTATGTTTT
Found at i:20564928 original size:20 final size:20
Alignment explanation
Indices: 20564891--20564930 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20564881 ATTAATTTCA
*
20564891 TATATTCATATTTATTATAT
1 TATATACATATTTATTATAT
* *
20564911 TATATACATTTTTTTTATAT
1 TATATACATATTTATTATAT
20564931 ATAAGTGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATACATATTTATTATAT
Found at i:20567308 original size:21 final size:21
Alignment explanation
Indices: 20567282--20567323 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20567272 AGAACAAGCA
20567282 ACAAATGAGAATTCTTTAAAT
1 ACAAATGAGAATTCTTTAAAT
20567303 ACAAATGAGAATTCTTTAAAT
1 ACAAATGAGAATTCTTTAAAT
20567324 TAAAGAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
ACAAATGAGAATTCTTTAAAT
Found at i:20570552 original size:39 final size:39
Alignment explanation
Indices: 20570508--20570586 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
20570498 GTTTAAGGAC
20570508 ATCCAATAAAGCACTCATTAGTCAATATGAAAAGTTATT
1 ATCCAATAAAGCACTCATTAGTCAATATGAAAAGTTATT
*
20570547 ATCCAATAAAGCACTCATTAGTCAATATGAAAATTTATT
1 ATCCAATAAAGCACTCATTAGTCAATATGAAAAGTTATT
20570586 A
1 A
20570587 CCATAGGCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (39 bp):
ATCCAATAAAGCACTCATTAGTCAATATGAAAAGTTATT
Found at i:20570572 original size:19 final size:19
Alignment explanation
Indices: 20570511--20570573 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
20570501 TAAGGACATC
20570511 CAATAAAGCACTCATTAGT
1 CAATAAAGCACTCATTAGT
* * *
20570530 CAATATGAA-AAGTTATTA-T
1 CAATA--AAGCACTCATTAGT
20570549 CCAATAAAGCACTCATTAGT
1 -CAATAAAGCACTCATTAGT
20570569 CAATA
1 CAATA
20570574 TGAAAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 2 0.06
19 17 0.52
20 12 0.36
21 2 0.06
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (19 bp):
CAATAAAGCACTCATTAGT
Found at i:20572094 original size:15 final size:15
Alignment explanation
Indices: 20572074--20572105 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20572064 ATAAAGAAAT
*
20572074 TGGGGCACACGGTCG
1 TGGGGCACACGGGCG
20572089 TGGGGCACACGGGCG
1 TGGGGCACACGGGCG
20572104 TG
1 TG
20572106 CCCATTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.50, T:0.12
Consensus pattern (15 bp):
TGGGGCACACGGGCG
Found at i:20575234 original size:40 final size:40
Alignment explanation
Indices: 20575179--20575395 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 40
20575169 CGGATGATAA
* * * **
20575179 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
20575219 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
20575259 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
20575299 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
20575339 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
20575378 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
20575396 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 129 0.81
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:20583398 original size:26 final size:25
Alignment explanation
Indices: 20583365--20583418 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
20583355 AAGGAATTAA
20583365 GAATGAAA-AAAATAGAAAAAGAAAG
1 GAATGAAAGAAAAT-GAAAAAGAAAG
* *
20583390 GAATGGAAAGAGAATGAAGAAGAAAG
1 GAAT-GAAAGAAAATGAAAAAGAAAG
20583416 GAA
1 GAA
20583419 AAATGAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.16
26 17 0.68
27 4 0.16
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (25 bp):
GAATGAAAGAAAATGAAAAAGAAAG
Found at i:20604538 original size:47 final size:45
Alignment explanation
Indices: 20604475--20604635 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 45
20604465 GTGCTAGGGC
*
20604475 AAGACATGTCTGGGACATGCATCGGCCA-TATTATGAGAGCTAGTGT
1 AAGACATGTCTGGGACATGCA-CGGCCATTA-AATGAGAGCTAGTGT
* * *
20604521 AAGACCATGTCTAGGACATGGCACTGACATTGAAATGAGAGCTAGTGT
1 AAGA-CATGTCTGGGACAT-GCACGGCCATT-AAATGAGAGCTAGTGT
* * * *
20604569 AAAACATGTCTGGGACATGCAACGGCC-TCGACATGTA-AGCCAGTGT
1 AAGACATGTCTGGGACATGC-ACGGCCAT-TAAATG-AGAGCTAGTGT
*
20604615 AAGATATGTCTGGGACATGCA
1 AAGACATGTCTGGGACATGCA
20604636 TCAGCTACGA
Statistics
Matches: 95, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 37 0.39
47 35 0.37
48 21 0.22
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (45 bp):
AAGACATGTCTGGGACATGCACGGCCATTAAATGAGAGCTAGTGT
Found at i:20606952 original size:39 final size:39
Alignment explanation
Indices: 20606896--20607192 Score: 371
Period size: 39 Copynumber: 7.6 Consensus size: 39
20606886 ATAATGGAGA
* * *
20606896 ATTATATCCGGGTTAAGTCCTGAAGGCATTTGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * *
20606935 GTTATATCCGGGCTAAGTCCCGAAGGAATTCGTACTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * **
20606974 ATTATATTCGGGCTAAGTCCCAAAGAAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
20607013 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTACTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
20607052 ATTATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * *
20607091 GTTATATCCAGGCTAAGTCCCAAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * * *
20607130 ATTATATCCAGGCTAAAGTCCCGCAGGC-TTTGTGCTTGT
1 ATTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
20607169 ATTATATCCGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
20607193 CATGCTTTGT
Statistics
Matches: 226, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
39 205 0.91
40 21 0.09
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
Found at i:20609803 original size:27 final size:26
Alignment explanation
Indices: 20609763--20609813 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
20609753 TTCTATGTTC
*
20609763 TACGAGATTCTATTCTAGGATTTCTGA
1 TACGACATTCTATT-TAGGATTTCTGA
* *
20609790 TACGACATTGTATTTTGGATTTCT
1 TACGACATTCTATTTAGGATTTCT
20609814 ATATTTTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.45
Consensus pattern (26 bp):
TACGACATTCTATTTAGGATTTCTGA
Found at i:20612810 original size:39 final size:39
Alignment explanation
Indices: 20612754--20613010 Score: 397
Period size: 39 Copynumber: 6.6 Consensus size: 39
20612744 ATAATGGAGA
* * * *
20612754 ATTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGT
1 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
* * *
20612793 GTTATATCTGGGCTAAGTCCCAAAGGAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
*
20612832 ATTATATCCGGGCTAAGTCTCGAAGGAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
*
20612871 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTACTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
*
20612910 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
* *
20612949 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
20612988 ATTATATCCGGGCTAAAGTCCCG
1 ATTATATCCGGGCT-AAGTCCCG
20613011 CGAGCTTTGT
Statistics
Matches: 200, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 192 0.96
40 8 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTGCTGGT
Found at i:20612849 original size:78 final size:78
Alignment explanation
Indices: 20612754--20613050 Score: 418
Period size: 78 Copynumber: 3.8 Consensus size: 78
20612744 ATAATGGAGA
* * * * *
20612754 ATTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGTTATATCTGGGCTAAGTCCCAAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
20612819 AATTCGTGCTGGT
66 AATTCGTGCTGGT
* * *
20612832 ATTATATCCGGGCTAAGTCTCGAAGGAATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
*
20612897 AATTCGTACTGGT
66 AATTCGTGCTGGT
20612910 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
*
20612975 CATTCGTGCTGGT
66 AATTCGTGCTGGT
* * * *
20612988 ATTATATCCGGGCTAAAGTCCCG-CGAGC-TTTGTACTGGTTTTATATCCGGGCTTAAAGTCCCG
1 ATTATATCCGGGCT-AAGTCCCGAAG-GCATTCGTGCTGGTGTTATATCCGGGC-T-AAGTCCCG
20613051 CATGCTTTGT
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
78 178 0.90
79 11 0.06
80 8 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (78 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
AATTCGTGCTGGT
Found at i:20613045 original size:40 final size:39
Alignment explanation
Indices: 20612754--20613050 Score: 373
Period size: 39 Copynumber: 7.6 Consensus size: 39
20612744 ATAATGGAGA
* * * *
20612754 ATTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
* * * * *
20612793 GTTATATCTGGGCTAAGTCCCAAAGGAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
* * *
20612832 ATTATATCCGGGCTAAGTCTCGAAGGAATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
*
20612871 ATTATATCCGGGCTAAGTCCCGAAGGAATTCGTACTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
*
20612910 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
* *
20612949 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
* *
20612988 ATTATATCCGGGCTAAAGTCCCG-CGAGC-TTTGTACTGGT
1 ATTATATCCGGGCT-AAGTCCCGAAG-GCATTCGTACTGGT
*
20613027 TTTATATCCGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
20613051 CATGCTTTGT
Statistics
Matches: 234, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 214 0.91
40 20 0.09
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGT
Found at i:20633625 original size:49 final size:50
Alignment explanation
Indices: 20633276--20633639 Score: 193
Period size: 46 Copynumber: 7.7 Consensus size: 50
20633266 TTATTTGTGT
* * * * *
20633276 GCTAGTGTAAGA-CATGTCTAGGACA-AGCATCGAC-CACAT-TATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGA
* * * *** ** * *
20633322 GCCAGTGTAAGACCATGTTTGGGAGATGGCATCAATATTGAGA--CGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGA
* * *
20633370 GCTAGTGTAAGA-CATGTCTAGGG-CAT-GCATCAGC-CTCGACATGT-A-A
1 GCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCAC-AGATATGTGAGA
* * *
20633416 GCTAGTGTAAGA-CATGTCTGGGACAT-GCGTTGGCTAC-GAGATGT----
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGATATGTGAGA
* * * *** *
20633460 GTTAGTGTAAGACCATGTTTGGGACATGGCATC-G-ACACATATAAAAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGA
*
20633508 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGA
* * * *
20633558 GCTAGTGTAAGACCATGTCTAGGACATGGCATTGGC-CTCGAT-T-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGT-GAGA
*
20633607 GTTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
20633640 AGCATTATAC
Statistics
Matches: 248, Mismatches: 46, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 17 0.07
46 57 0.23
47 20 0.08
48 57 0.23
49 37 0.15
50 43 0.17
51 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGA
Found at i:20637149 original size:13 final size:13
Alignment explanation
Indices: 20637133--20637165 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20637123 TTTAATTAAA
*
20637133 TTAGTTAATTAGT
1 TTAGATAATTAGT
20637146 TTAGATAATTAGT
1 TTAGATAATTAGT
20637159 TTA-ATAA
1 TTAGATAA
20637166 ACAAGTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:20637456 original size:5 final size:5
Alignment explanation
Indices: 20637446--20637473 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20637436 TTTTCTTGCA
20637446 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
20637474 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:20642582 original size:20 final size:19
Alignment explanation
Indices: 20642557--20642637 Score: 78
Period size: 19 Copynumber: 4.3 Consensus size: 19
20642547 TGAATCCTCC
20642557 TATTTTTTATTTCCTTA-TTT
1 TATTTTTTATTT--TTATTTT
20642577 TA-TTTTTATTTTTATTTTT
1 TATTTTTTATTTTTA-TTTT
*
20642596 TATTTTTTATTTTTCTTTT
1 TATTTTTTATTTTTATTTT
* *
20642615 T-CTTTTGATTTTTATTTT
1 TATTTTTTATTTTTATTTT
*
20642633 CATTT
1 TATTT
20642638 CAATTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.06
18 14 0.27
19 21 0.41
20 13 0.25
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (19 bp):
TATTTTTTATTTTTATTTT
Found at i:20642595 original size:13 final size:13
Alignment explanation
Indices: 20642560--20642632 Score: 64
Period size: 13 Copynumber: 5.8 Consensus size: 13
20642550 ATCCTCCTAT
*
20642560 TTTTTATTTCCTTA
1 TTTTTATTT-TTTA
20642574 -TTTTA-TTTTTA
1 TTTTTATTTTTTA
20642585 TTTTTATTTTTTA
1 TTTTTATTTTTTA
*
20642598 TTTTT-TATTTTTC
1 TTTTTAT-TTTTTA
* *
20642611 TTTTT-CTTTTGA
1 TTTTTATTTTTTA
20642623 TTTTTATTTT
1 TTTTTATTTT
20642633 CATTTCAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
11 3 0.06
12 17 0.35
13 29 0.59
ACGTcount: A:0.12, C:0.05, G:0.01, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:20642598 original size:32 final size:32
Alignment explanation
Indices: 20642557--20642631 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
20642547 TGAATCCTCC
20642557 TATTTTTTATTTCCTTA-TTTTATTTTTATTTT
1 TATTTTTTATTT-CTTATTTTTATTTTTATTTT
* * *
20642589 TATTTTTTATTTTTTATTTTTCTTTTTCTTTT
1 TATTTTTTATTTCTTATTTTTATTTTTATTTT
*
20642621 GA-TTTTTATTT
1 TATTTTTTATTT
20642632 TCATTTCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 12 0.32
32 26 0.68
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.80
Consensus pattern (32 bp):
TATTTTTTATTTCTTATTTTTATTTTTATTTT
Found at i:20642615 original size:7 final size:7
Alignment explanation
Indices: 20642557--20642609 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
20642547 TGAATCCTCC
20642557 TATTTTT
1 TATTTTT
*
20642564 TATTTCCT
1 TATTT-TT
20642572 TA--TTT
1 TATTTTT
20642577 TA-TTTT
1 TATTTTT
20642583 TA-TTTT
1 TATTTTT
20642589 TATTTTT
1 TATTTTT
20642596 TATTTTT
1 TATTTTT
20642603 TATTTTT
1 TATTTTT
20642610 CTTTTTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 3 0.07
6 12 0.29
7 23 0.56
8 3 0.07
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:20642627 original size:7 final size:6
Alignment explanation
Indices: 20642560--20642637 Score: 77
Period size: 6 Copynumber: 12.5 Consensus size: 6
20642550 ATCCTCCTAT
*
20642560 TTTTTA TTTCCTTA -TTTTA TTTTTA TTTTTA TTTTTTA TTTTTTA TTTTTC
1 TTTTTA TTT--TTA TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTTA
* * *
20642611 TTTTTC TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
20642638 CAATTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
5 3 0.05
6 42 0.67
7 15 0.24
8 3 0.05
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:20645451 original size:46 final size:45
Alignment explanation
Indices: 20645398--20645573 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
20645388 TATTTGGGCA
20645398 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
20645444 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
20645491 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
20645537 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20645574 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:20645553 original size:93 final size:93
Alignment explanation
Indices: 20645394--20645565 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
20645384 AGGATATTTG
* *
20645394 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
20645459 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
20645487 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
20645552 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
20645566 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:20648548 original size:15 final size:15
Alignment explanation
Indices: 20648528--20648596 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
20648518 ATATCTTGGG
20648528 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
20648543 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
20648558 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
20648573 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
20648588 TTTCTTTAT
1 TTTCTTTAT
20648597 TCAGTTTCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:20648597 original size:30 final size:30
Alignment explanation
Indices: 20648519--20648598 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
20648509 CATAGTATCA
* * *
20648519 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
20648549 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
20648579 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
20648599 AGTTTCCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:20650595 original size:46 final size:48
Alignment explanation
Indices: 20650528--20650651 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 48
20650518 GGCATCCAAA
20650528 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G-TCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAGATCCGAG
*
20650574 CTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAACTA-G-ATCCGAG
*
20650621 CTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20650652 GCGGGTTACA
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
42 3 0.05
43 6 0.09
45 1 0.02
46 24 0.36
47 29 0.44
50 2 0.03
51 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (48 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAGATCCGAG
Found at i:20652878 original size:13 final size:13
Alignment explanation
Indices: 20652862--20652894 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20652852 TTTAATTAAA
*
20652862 TTAGTTAATTAGT
1 TTAGATAATTAGT
20652875 TTAGATAATTAGT
1 TTAGATAATTAGT
20652888 TTA-ATAA
1 TTAGATAA
20652895 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:20661491 original size:47 final size:47
Alignment explanation
Indices: 20661418--20661550 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
20661408 ACAACCGAGG
20661418 TAAGTTACCTTGATTTGGCTAAGGGCCATGGTATAGGTACTCCAGGA
1 TAAGTTACCTTGATTTGGCTAAGGGCCATGGTATAGGTACTCCAGGA
*
20661465 TAAGTTACCTTGATTTGGCTAGGGGCCATGGTATAGGTACTCCAGGA
1 TAAGTTACCTTGATTTGGCTAAGGGCCATGGTATAGGTACTCCAGGA
* *
20661512 TAAGTTACCTTGATTTGGCTACGAGCCATGGTATAGGTA
1 TAAGTTACCTTGATTTGGCTAAGGGCCATGGTATAGGTA
20661551 TTTATCGATT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (47 bp):
TAAGTTACCTTGATTTGGCTAAGGGCCATGGTATAGGTACTCCAGGA
Found at i:20663891 original size:22 final size:22
Alignment explanation
Indices: 20663861--20663906 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
20663851 AGATTATAGA
* *
20663861 ATTGACAAATGAAATGTTCACC
1 ATTGACAAATGAAACGCTCACC
*
20663883 ATTGGCAAATGAAACGCTCACC
1 ATTGACAAATGAAACGCTCACC
20663905 AT
1 AT
20663907 GTTGTTGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (22 bp):
ATTGACAAATGAAACGCTCACC
Found at i:20666125 original size:47 final size:46
Alignment explanation
Indices: 20666056--20666178 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 46
20666046 ATGGTTGAGT
* * * *
20666056 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGACGATGCAA--ACGC
*
20666102 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCAAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAC-GATGCAAACGC
20666150 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
20666179 TTTATGGGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 28 0.41
47 29 0.43
48 5 0.07
50 6 0.09
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGACGATGCAAACGC
Found at i:20671263 original size:39 final size:39
Alignment explanation
Indices: 20671100--20671282 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
20671090 TTGAATGCTG
* * * * * *
20671100 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
20671140 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
**
20671180 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
20671220 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
20671259 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20671283 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
39 39 0.32
40 74 0.61
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:20671302 original size:79 final size:80
Alignment explanation
Indices: 20671136--20671317 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
20671126 GCTAAGTGAA
* * *
20671136 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGG
** ** *
20671200 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
20671216 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGC
*
20671280 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
20671295 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
20671318 TACGTGATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 14 0.17
79 51 0.61
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:20679110 original size:124 final size:124
Alignment explanation
Indices: 20678902--20679150 Score: 489
Period size: 124 Copynumber: 2.0 Consensus size: 124
20678892 GTGTTTGAGT
20678902 TTCGCAAATGAAAATGAAATGTGAATGTGCATGATTAATTGAATGCAGTCCGGGCTAAGTCCCGA
1 TTCGCAAATGAAAATGAAATGTGAATGTGCATGATTAATTGAATGCAGTCCGGGCTAAGTCCCGA
20678967 AGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATAC
66 AGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATAC
*
20679026 TTCGCAAATGAAAATGAAATGTGAATGTGCATGATTAATTGAATGCTGTCCGGGCTAAGTCCCGA
1 TTCGCAAATGAAAATGAAATGTGAATGTGCATGATTAATTGAATGCAGTCCGGGCTAAGTCCCGA
20679091 AGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATAC
66 AGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATAC
20679150 T
1 T
20679151 AAATCCGGGT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (124 bp):
TTCGCAAATGAAAATGAAATGTGAATGTGCATGATTAATTGAATGCAGTCCGGGCTAAGTCCCGA
AGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATAC
Found at i:20679157 original size:40 final size:40
Alignment explanation
Indices: 20679074--20679254 Score: 136
Period size: 40 Copynumber: 4.5 Consensus size: 40
20679064 TTGAATGCTG
* * * * *
20679074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
20679114 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
20679154 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
20679194 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
20679233 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCA
20679255 CTTGAACGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 34 0.28
40 77 0.63
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:20679238 original size:39 final size:39
Alignment explanation
Indices: 20679127--20679254 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 39
20679117 GGACTAAGAT
* * *
20679127 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
20679167 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
20679207 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
20679246 CCGAAGGCA
1 CCGAAGGCA
20679255 CTTGAACGAG
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.46
40 43 0.54
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:20685108 original size:45 final size:45
Alignment explanation
Indices: 20685059--20685149 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
20685049 ATGATGTTTT
* *
20685059 TGTGAATTATGATTTGGTGATATGCAAATTATGTGAACAACTTGA
1 TGTGAATTATGATTTGGTGATATGAAAATTATGTAAACAACTTGA
*
20685104 TGTGAATTATTATTTGGTGATATGAAAATTATGTAAACAACTTGA
1 TGTGAATTATGATTTGGTGATATGAAAATTATGTAAACAACTTGA
20685149 T
1 T
20685150 AAGTATGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (45 bp):
TGTGAATTATGATTTGGTGATATGAAAATTATGTAAACAACTTGA
Found at i:20685312 original size:20 final size:21
Alignment explanation
Indices: 20685276--20685355 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 21
20685266 CACTAGGATG
* *
20685276 GTTGAGTTCCGAACTCGTTGA
1 GTTGAGATCCGAGCTCGTTGA
*
20685297 GTTGAG-TCCGAGCTCGTGAGA
1 GTTGAGATCCGAGCTCGT-TGA
*
20685318 TGTAATTAGGCATCCGAGCTCGTTGA
1 -GT--TGA-G-ATCCGAGCTCGTTGA
20685344 GTTGAG-TCCGAG
1 GTTGAGATCCGAG
20685356 TTCACTTACG
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
20 16 0.34
21 8 0.17
22 3 0.06
23 2 0.04
24 2 0.04
25 3 0.06
26 2 0.04
27 11 0.23
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
GTTGAGATCCGAGCTCGTTGA
Found at i:20686087 original size:39 final size:39
Alignment explanation
Indices: 20686033--20686109 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
20686023 TTATGTCTTA
20686033 ACTAAACCATGAAAATCCTTGGAATGATAAAATTGGCCT
1 ACTAAACCATGAAAATCCTTGGAATGATAAAATTGGCCT
* *
20686072 ACTAAACCATGAAAATCCTTGGGATGGTAAAATTGGCC
1 ACTAAACCATGAAAATCCTTGGAATGATAAAATTGGCC
20686110 ATAAAATAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (39 bp):
ACTAAACCATGAAAATCCTTGGAATGATAAAATTGGCCT
Found at i:20688954 original size:13 final size:13
Alignment explanation
Indices: 20688938--20688972 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
20688928 CAACACACAC
*
20688938 GCTCCTGTGACTA
1 GCTCATGTGACTA
*
20688951 GCTCGTGTGACTA
1 GCTCATGTGACTA
20688964 GCTCATGTG
1 GCTCATGTG
20688973 CCCTTCGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (13 bp):
GCTCATGTGACTA
Found at i:20699348 original size:35 final size:35
Alignment explanation
Indices: 20699295--20699392 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 35
20699285 TGTATATCTA
*
20699295 TATCTGTATTTGAGATGGGCTTAGGCCCAAATATG
1 TATCTATATTTGAGATGGGCTTAGGCCCAAATATG
*
20699330 TATCTATATTT-AGAATGGGCTTAGGCCCGAATATG
1 TATCTATATTTGAG-ATGGGCTTAGGCCCAAATATG
* * * * * *
20699365 CATCTGTCTCTGTGATGGGCTCAGGCCC
1 TATCTATATTTGAGATGGGCTTAGGCCC
20699393 GAATTGGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.04
35 50 0.94
36 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (35 bp):
TATCTATATTTGAGATGGGCTTAGGCCCAAATATG
Found at i:20706517 original size:35 final size:33
Alignment explanation
Indices: 20706407--20706517 Score: 107
Period size: 35 Copynumber: 3.2 Consensus size: 33
20706397 TGTATATCTA
* *
20706407 TATCTGTATTTGAGATGGGCTTAGGCCCAAATATG
1 TATCTGTATCT-AGATGGGCTTAGG-CCGAATATG
* *
20706442 TATCTATATCTGGAATGGGCTTAGGCTCGAATATG
1 TATCTGTATCTAG-ATGGGCTTAGGC-CGAATATG
*
20706477 CATCTGTATCTATGATGGGCTTAGGCCGGAAT-TGG
1 TATCTGTATCTA-GATGGGCTTAGGCC-GAATAT-G
20706512 TATCTG
1 TATCTG
20706518 ATTGACTCTG
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
34 4 0.06
35 58 0.92
36 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (33 bp):
TATCTGTATCTAGATGGGCTTAGGCCGAATATG
Found at i:20707257 original size:20 final size:20
Alignment explanation
Indices: 20707212--20707257 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
20707202 TAATATATAC
*
20707212 GTAAATATTATTCCTTGATA
1 GTAAATATTATTCCTTAATA
* *
20707232 GAAAATATTATTCTTTAATA
1 GTAAATATTATTCCTTAATA
*
20707252 TTAAAT
1 GTAAAT
20707258 TGATCTGGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (20 bp):
GTAAATATTATTCCTTAATA
Found at i:20718059 original size:12 final size:12
Alignment explanation
Indices: 20718042--20718066 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20718032 AATTTTAGTT
20718042 TTAGGATTATTA
1 TTAGGATTATTA
20718054 TTAGGATTATTA
1 TTAGGATTATTA
20718066 T
1 T
20718067 GATATTGTTT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTAGGATTATTA
Found at i:20721004 original size:26 final size:27
Alignment explanation
Indices: 20720962--20721034 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
20720952 ACACACCTTA
*
20720962 GCTC-TTATGAGCATCCCGATTAAA-G
1 GCTCTTTATGAGCTTCCCGATTAAATG
* *
20720987 GTTCTTTATGAACTTCCC-ATTAAATTG
1 GCTCTTTATGAGCTTCCCGATTAAA-TG
20721014 GCTCTTTATGAGCTTCCCGAT
1 GCTCTTTATGAGCTTCCCGAT
20721035 AATGCTCGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 9 0.23
26 11 0.28
27 17 0.44
28 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (27 bp):
GCTCTTTATGAGCTTCCCGATTAAATG
Found at i:20725519 original size:47 final size:47
Alignment explanation
Indices: 20725466--20725651 Score: 259
Period size: 47 Copynumber: 4.0 Consensus size: 47
20725456 TTAGGATTTT
** * *
20725466 ATGTGATGAATGTGAATGTGTATATA-TGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATA-AGTGTGATAAGGCCGAATGGCCA
20725513 ATGTGATGAATGTGAACATGCATAAGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATAAGTGTGATAAGGCCGAATGGCCA
*
20725560 ATGTGATGAATGTGAGCATGCATAAGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATAAGTGTGATAAGGCCGAATGGCCA
* * * *
20725607 ATGTGGTGAATATGAACATGCATATA-TGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATA-AGTGTGATAAGGCCGAATGGC
20725652 TAGTGTGAAA
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 125 0.98
48 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATAAGTGTGATAAGGCCGAATGGCCA
Found at i:20725921 original size:37 final size:37
Alignment explanation
Indices: 20725813--20725921 Score: 157
Period size: 37 Copynumber: 2.9 Consensus size: 37
20725803 GGAAATATAT
* *
20725813 TCCAGGTAAGACCCGATGACTACGTGCGGAGATTATG
1 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
20725850 TCCAGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
20725887 TCC-GAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCAG-GTAAGACCCGATGACTACGTGTGGAGATTT
20725922 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 1 0.02
37 64 0.98
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (37 bp):
TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:20729853 original size:107 final size:107
Alignment explanation
Indices: 20729659--20729853 Score: 259
Period size: 107 Copynumber: 1.8 Consensus size: 107
20729649 AAAAAATTAA
* *
20729659 GAGTGTGTTGGGCTAAGTAATCGGGGTGGGGTGCTTGGGTTGTCATTCCCTTTCGCGTCAAAAGG
1 GAGTGTGTTGGGCTAAGTAATCAGGGTGGGGTGCTTCGGTTGTCATTCCCTTTCGCGTCAAAAGG
*
20729724 CCCAAAACATTCTTAACCAAAAAATATATAATAATAAAATAG
66 CCCAAAACATTCTTAACAAAAAAATATATAATAATAAAATAG
* * * *
20729766 GAGTGTGTTGGGTTGAGTAA-CAAGGGTGGGGTGGTTCGGTTGTCA-TCCCTCTTTGCGTCAAAA
1 GAGTGTGTTGGGCTAAGTAATC-AGGGTGGGGTGCTTCGGTTGTCATTCCCT-TTCGCGTCAAAA
** * *
20729829 GGGTCAATACATTCTTAAGAAAAAA
64 GGCCCAAAACATTCTTAACAAAAAA
20729854 CTAAAAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
106 6 0.08
107 69 0.92
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (107 bp):
GAGTGTGTTGGGCTAAGTAATCAGGGTGGGGTGCTTCGGTTGTCATTCCCTTTCGCGTCAAAAGG
CCCAAAACATTCTTAACAAAAAAATATATAATAATAAAATAG
Found at i:20735944 original size:21 final size:21
Alignment explanation
Indices: 20735892--20735938 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
20735882 ATTAAATGAA
*
20735892 GATA-TAAAGCTGTTAGTCGG
1 GATACTAAAGCTATTAGTCGG
20735912 GATACTAAAGCTATTAGTCGG
1 GATACTAAAGCTATTAGTCGG
20735933 GATACT
1 GATACT
20735939 TGAGCTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (21 bp):
GATACTAAAGCTATTAGTCGG
Found at i:20738544 original size:30 final size:30
Alignment explanation
Indices: 20738510--20738570 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
20738500 CATTTAATAC
20738510 AAAC-TTTGAAAAAATTACACTTTTGCCCCT
1 AAACTTTTG-AAAAATTACACTTTTGCCCCT
* *
20738540 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
20738570 A
1 A
20738571 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:20745575 original size:84 final size:82
Alignment explanation
Indices: 20745449--20745604 Score: 258
Period size: 84 Copynumber: 1.9 Consensus size: 82
20745439 TATTCGGGCT
* * *
20745449 TTATTGCCTAGCAGGCTTTGTGTCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTGCC
20745514 GGTGTATGAAATCAGGC
66 GGTGTATGAAATCAGGC
*
20745531 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTG
1 TTATTGCCTAGCAGGC-TT-TATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTG
20745596 CCGGTGTAT
64 CCGGTGTAT
20745605 TATACTAAGC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
82 16 0.24
83 2 0.03
84 50 0.74
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (82 bp):
TTATTGCCTAGCAGGCTTTATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTGCC
GGTGTATGAAATCAGGC
Found at i:20745623 original size:84 final size:83
Alignment explanation
Indices: 20745446--20745627 Score: 253
Period size: 84 Copynumber: 2.2 Consensus size: 83
20745436 TGATATTCGG
* * *
20745446 GCTTTATTGCCTAGCAGGCTTTGTGTCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGT
1 GCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGT
*
20745511 GCCGGTGTATGAAATCAG
66 GCCGGTGTATGAAATCAA
*
20745529 GC-TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCT
1 GCTTTATTGCCTAGCAGGC-TT-TATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCT
* *
20745593 GTGCCGGTGTATTATA-CTAA
64 GTGCCGGTGTATGAAATC-AA
20745613 GCTTTA-TGCCTAGCA
1 GCTTTATTGCCTAGCA
20745628 AATTTTATGT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
82 16 0.18
83 5 0.06
84 64 0.73
85 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (83 bp):
GCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGT
GCCGGTGTATGAAATCAA
Found at i:20745627 original size:41 final size:41
Alignment explanation
Indices: 20745449--20745606 Score: 253
Period size: 41 Copynumber: 3.8 Consensus size: 41
20745439 TATTCGGGCT
*
20745449 TTATTGCCTAGCAGGCTTTGTGTCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
20745490 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATGAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
20745531 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTAAATCAGGC
*
20745574 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTA
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTA
20745607 TACTAAGCTT
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 69 0.64
42 3 0.03
43 36 0.33
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:20748260 original size:40 final size:40
Alignment explanation
Indices: 20748205--20748305 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
20748195 TTGGCTTCAA
* * * *
20748205 TATAACAACCAGCACGAATGCCTTCGGGACTTAACTCGGT
1 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
20748245 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
*
20748285 TATAATAACCCACACGAATGC
1 TATAATAACCCGCACGAATGC
20748306 TATGCACATA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
Found at i:20763725 original size:56 final size:56
Alignment explanation
Indices: 20763664--20763852 Score: 279
Period size: 56 Copynumber: 3.4 Consensus size: 56
20763654 CAGATAGGGA
* * *
20763664 CTTACTCGTAAACACATATCGGAATCACCTATCGATGCCAACGTATTAAACATGGT
1 CTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
* * * *
20763720 CTTACTCGCACACACATATTGGAATCACATATCGATGCCAACATATTAAACGCGGT
1 CTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
* *
20763776 CTTACTCGCACACACATATCGGAATCACAGATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
* *
20763832 CTTACTCGTAATCACATATCG
1 CTTACTCGCAAACACATATCG
20763853 ATGCAAACGT
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (56 bp):
CTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
Found at i:20763862 original size:43 final size:43
Alignment explanation
Indices: 20763798--20764152 Score: 341
Period size: 43 Copynumber: 8.3 Consensus size: 43
20763788 CACATATCGG
* ** * *
20763798 AATCACAGATCGATGCCAACGTATTAAACGTGGTCTTACTCGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* * *
20763841 AATCACATATCGATGCAAACGTCCTAGATGTGGTCTTAGACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* *
20763884 AATCACATATTGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* *
20763927 AATCACATATCGATGCC-ACTATCCTAGACAG-GGTCTTACAC-A
1 AATCACATATCGATGCCAAC-GTCCTAGAC-GTGGTCTTACACGT
* * * *
20763969 AATCAAATA-CGATGCCGATGTCCTAGACATGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* * *
20764011 AATCACATAT-TACTGCC-ACTGTCCCAGACAG-GGTCTTACATGT
1 AATCACATATCGA-TGCCAAC-GTCCTAGAC-GTGGTCTTACACGT
* * * *
20764054 AATCTA-ATATTGATGCCAACGTCCAAGACGTGATCTTACATGT
1 AATC-ACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* * *
20764097 AAGCACATATCGATGCCAACGTCCTAAACGTGGTATTACACG-
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
*
20764139 AGAACACATATCGA
1 A-ATCACATATCGA
20764153 AAATCCTATG
Statistics
Matches: 258, Mismatches: 39, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
41 25 0.10
42 24 0.09
43 204 0.79
44 5 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
Found at i:20764091 original size:127 final size:127
Alignment explanation
Indices: 20763861--20764093 Score: 298
Period size: 127 Copynumber: 1.8 Consensus size: 127
20763851 CGATGCAAAC
** *
20763861 GTCCTAGATGTGGTCTTAGACGTAATCACATATTGATGCCAACGTCCCAGACGTGGTCTTACACG
1 GTCCTAGACATGGTCTTACACGTAATCACATATTGATGCCAACGTCCCAGACGTGGTCTTACACG
* *
20763926 TAATCACATATCGATGCCACTATCCTAGACAGGGTCTTACACAAATCAAATACGATGCCGAT
66 TAATCACATATCGATGCCACTATCCAAGACAGGATCTTACACAAATCAAATACGATGCCGAT
20763988 GTCCTAGACATGGTCTTACACGTAATCACATATT-ACTGCC-ACTGTCCCAGACAG-GGTCTTAC
1 GTCCTAGACATGGTCTTACACGTAATCACATATTGA-TGCCAAC-GTCCCAGAC-GTGGTCTTAC
* * *
20764050 ATGTAATCTA-ATATTGATGCCAAC-GTCCAAGAC-GTGATCTTACA
63 ACGTAATC-ACATATCGATGCC-ACTATCCAAGACAG-GATCTTACA
20764094 TGTAAGCACA
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
126 4 0.04
127 84 0.91
128 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (127 bp):
GTCCTAGACATGGTCTTACACGTAATCACATATTGATGCCAACGTCCCAGACGTGGTCTTACACG
TAATCACATATCGATGCCACTATCCAAGACAGGATCTTACACAAATCAAATACGATGCCGAT
Found at i:20765911 original size:55 final size:55
Alignment explanation
Indices: 20765769--20765978 Score: 250
Period size: 55 Copynumber: 3.9 Consensus size: 55
20765759 GTATCCTTTT
* * * *
20765769 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGACTTAT-
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
20765823 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
20765877 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-T-TA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
20765930 GAATCCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAA-ACTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
20765979 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.36
54 10 0.08
55 71 0.54
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (55 bp):
GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:20773247 original size:16 final size:16
Alignment explanation
Indices: 20773228--20773258 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20773218 CTTCTACACT
20773228 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
20773244 TACTTACTTACTTAA
1 TACTCACTTACTTAA
20773259 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:20773264 original size:20 final size:20
Alignment explanation
Indices: 20773225--20773264 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20773215 AAACTTCTAC
* *
20773225 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
20773245 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
20773265 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:20774327 original size:15 final size:16
Alignment explanation
Indices: 20774307--20774336 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20774297 CTGTAAAGAT
20774307 TATACATTC-CATATA
1 TATACATTCTCATATA
20774322 TATACATTCTCATAT
1 TATACATTCTCATAT
20774337 CTTGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:20774502 original size:42 final size:42
Alignment explanation
Indices: 20774394--20774507 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
20774384 ATGGAGTACA
* * ** * *
20774394 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCT
1 ATGCCGATGTCCCAGACATGGTCTTACA-CAAAATCAGTATCG
** * *
20774437 ATGCCTCTGTCCCTGACAGGGTCTTACACAAAATCAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACAAAATCAGTAT-CG
20774479 ATGCCGATGTCCCAGACATGGTCTTACAC
1 ATGCCGATGTCCCAGACATGGTCTTACAC
20774508 GTAAATATCA
Statistics
Matches: 56, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
41 2 0.04
42 32 0.57
43 22 0.39
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACAAAATCAGTATCG
Found at i:20777076 original size:43 final size:42
Alignment explanation
Indices: 20776972--20777076 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
20776962 GAGATTTATG
* ** ***
20776972 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTTG
1 TGTAAGACCACGTCTGGGACAGAGGCATCGTATCTGATTACA
*
20777014 TGTAAGACC-CTGTCAGGGACAGAGGCATCG-ATACTGAATTACA
1 TGTAAGACCAC-GTCTGGGACAGAGGCATCGTAT-CTG-ATTACA
20777057 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
20777077 GTCGGTATTG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.04
42 28 0.55
43 20 0.39
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGAGGCATCGTATCTGATTACA
Found at i:20777167 original size:15 final size:16
Alignment explanation
Indices: 20777141--20777170 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20777131 AGAGTACGAG
20777141 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
20777157 ATATG-GAATGTATA
1 ATATGAGAATGTATA
20777171 ATCTTTACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:20778378 original size:108 final size:108
Alignment explanation
Indices: 20778228--20778436 Score: 264
Period size: 108 Copynumber: 1.9 Consensus size: 108
20778218 CACATGGTAT
* * *
20778228 CCTTATGAAACTTACCATTGCCATGTCTCGACAAGGTGTTACATGGTATCCTTGCCTTATG-AA-
1 CCTTATGAAACTTACCAATGCCATGTCTCGACAAGGTCTTACATGATATCCTTGCCTTA-GAAAC
20778291 CTC-ACAAATGTT-ATGCCTTGGCATGGTCTTACATGGGACCTTTG
65 CTCAAC-AAT-TTCATGCCTTGGCATGGTCTTACATGGGACCTTTG
* * * * *
20778335 CCTTATAGAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATTCTTGCTTTAGAAAC
1 CCTTAT-GAAACTTACCAATGCCATGTCTCGACAAGGTCTTACATGATATCCTTGCCTTAGAAAC
*
20778400 CTTAACAATTTCCATGCCTTGGCATGGTCTTACATGG
65 CTCAACAATTT-CATGCCTTGGCATGGTCTTACATGG
20778437 TATCCTTAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
107 7 0.08
108 49 0.56
109 5 0.06
110 26 0.30
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (108 bp):
CCTTATGAAACTTACCAATGCCATGTCTCGACAAGGTCTTACATGATATCCTTGCCTTAGAAACC
TCAACAATTTCATGCCTTGGCATGGTCTTACATGGGACCTTTG
Found at i:20778379 original size:55 final size:53
Alignment explanation
Indices: 20778228--20778443 Score: 170
Period size: 55 Copynumber: 4.0 Consensus size: 53
20778218 CACATGGTAT
* * * * *
20778228 CCTTATGAAACTTACCATTGCCATGTCTCGACAAGGTGTTACATGGTATCC-TTG
1 CCTTATGAAACTTA-CAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTG
* ** * *
20778282 CCTTATG-AACTCACAAATGTTATGCCTTGGCATGGTCTTACATGGGACCTTTG
1 CCTTATGAAACTTAC-AATGCCATGCCTTGACATGGTCTTACATGGTACCTTTG
* * *
20778335 CCTTATAGAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATA-TTCTTG
1 CCTTAT-GAAACTTA-CAATGCCATGCCTTGACATGGTCTTACATGGTACCT-TTG
* * *
20778390 CTTTA-GAAACCTTAACAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTT-ACAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
20778444 AAACCATAAT
Statistics
Matches: 127, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
52 3 0.02
53 41 0.32
54 15 0.12
55 65 0.51
56 2 0.02
57 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (53 bp):
CCTTATGAAACTTACAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTG
Found at i:20799920 original size:11 final size:11
Alignment explanation
Indices: 20799906--20799930 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20799896 TTAAAATTAT
20799906 AAAAAAAAAAG
1 AAAAAAAAAAG
20799917 AAAAAAAAAAG
1 AAAAAAAAAAG
20799928 AAA
1 AAA
20799931 TGGGATTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:20811495 original size:19 final size:19
Alignment explanation
Indices: 20811471--20811507 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20811461 TTCATAAGCA
20811471 TTATTCAAATTAAAAGTGC
1 TTATTCAAATTAAAAGTGC
20811490 TTATTCAAATTAAAAGTG
1 TTATTCAAATTAAAAGTG
20811508 ATGATTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (19 bp):
TTATTCAAATTAAAAGTGC
Found at i:20821546 original size:26 final size:23
Alignment explanation
Indices: 20821517--20821563 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
20821507 TACAGAATAA
20821517 TCTACCCTCAACTACTACACACCATC
1 TCTACCC-C-ACT-CTACACACCATC
*
20821543 TCTATCCCACTCTACACACCA
1 TCTACCCCACTCTACACACCA
20821564 ATTAAGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 3 0.15
25 1 0.05
26 6 0.30
ACGTcount: A:0.30, C:0.47, G:0.00, T:0.23
Consensus pattern (23 bp):
TCTACCCCACTCTACACACCATC
Found at i:20822157 original size:31 final size:31
Alignment explanation
Indices: 20822108--20822178 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
20822098 CACACGCCTG
* * *
20822108 TGTGGCCTATAGGGCCTACCTATCAAGCCCA
1 TGTGGCCCATACGCCCTACCTATCAAGCCCA
*
20822139 TGTGGCCCATACGCCCTACCTATCCAGCCCA
1 TGTGGCCCATACGCCCTACCTATCAAGCCCA
20822170 TGTGGCCCA
1 TGTGGCCCA
20822179 CATGATCGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.20, C:0.38, G:0.21, T:0.21
Consensus pattern (31 bp):
TGTGGCCCATACGCCCTACCTATCAAGCCCA
Found at i:20822464 original size:26 final size:25
Alignment explanation
Indices: 20822433--20822496 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
20822423 TTGAAATAGG
20822433 ATAAAATAAATAATTAGTT-AATAATA
1 ATAAAATAAATAATTA-TTAAATAA-A
*
20822459 GTAAAA-ATAATAATTATTAAATAAA
1 ATAAAATA-AATAATTATTAAATAAA
20822484 ATAAAAT-AATAAT
1 ATAAAATAAATAAT
20822497 GGTATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
24 6 0.18
25 9 0.27
26 18 0.55
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAAAATAAATAATTATTAAATAAA
Found at i:20823734 original size:2 final size:2
Alignment explanation
Indices: 20823727--20823753 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20823717 TAAAGGTTGA
20823727 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
20823754 AAAATTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:20824060 original size:15 final size:16
Alignment explanation
Indices: 20824043--20824100 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 16
20824033 GAGATAATAA
20824043 AAATAAAAAATTTAA-
1 AAATAAAAAATTTAAT
*
20824058 AAAT-AAAAAGTTAATT
1 AAATAAAAAATTTAA-T
20824074 AAATAAAAATAATTTAAT
1 AAAT-AAAA-AATTTAAT
20824092 AAATAAAAA
1 AAATAAAAA
20824101 TAAACTAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 9 0.25
15 4 0.11
16 5 0.14
17 4 0.11
18 8 0.22
19 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAATAAAAAATTTAAT
Found at i:20824080 original size:22 final size:21
Alignment explanation
Indices: 20824055--20824104 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 21
20824045 ATAAAAAATT
20824055 TAAAAATAAAAAGTTAATTAAA
1 TAAAAATAAAAAGTTAA-TAAA
*
20824077 TAAAAAT---AATTTAATAAA
1 TAAAAATAAAAAGTTAATAAA
20824095 TAAAAATAAA
1 TAAAAATAAA
20824105 CTAGAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 11 0.46
19 6 0.25
22 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAATAAAAAGTTAATAAA
Done.