Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 72 of 356
Found at i:22783290 original size:20 final size:19
Alignment explanation
Indices: 22783253--22783290 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22783243 AATTAAATGT
*
22783253 AAATATTTATTGTATTAAA
1 AAATATTTATTATATTAAA
22783272 AAATATTTATTTATATTAA
1 AAATATTTA-TTATATTAA
22783291 GGGTTTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
AAATATTTATTATATTAAA
Found at i:22787999 original size:18 final size:18
Alignment explanation
Indices: 22787976--22788022 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 18
22787966 AAATTTTTAT
22787976 TTATAAATATGATAAATA
1 TTATAAATATGATAAATA
22787994 TTAT-AATA--A-AAATA
1 TTATAAATATGATAAATA
22788008 TT-TAAA-ATGATAAAT
1 TTATAAATATGATAAAT
22788023 TCAACGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 2 0.08
16 4 0.16
17 4 0.16
18 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
TTATAAATATGATAAATA
Found at i:22790342 original size:25 final size:25
Alignment explanation
Indices: 22790308--22790358 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22790298 TTCCTTATAA
**
22790308 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
22790333 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
22790358 A
1 A
22790359 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:22790357 original size:12 final size:12
Alignment explanation
Indices: 22790311--22790358 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
22790301 CTTATAAACT
22790311 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
22790323 TTCTATTAGGACT
1 TTAAATTAGGA-A
22790336 TTAAATTAGGAA
1 TTAAATTAGGAA
*
22790348 TTAGATTAGGA
1 TTAAATTAGGA
22790359 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:22795017 original size:25 final size:25
Alignment explanation
Indices: 22794983--22795033 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22794973 TTCCTTATAA
**
22794983 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
22795008 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
22795033 A
1 A
22795034 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:22795032 original size:12 final size:12
Alignment explanation
Indices: 22794986--22795033 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
22794976 CTTATAAACT
22794986 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
22794998 TTCTATTAGGACT
1 TTAAATTAGGA-A
22795011 TTAAATTAGGAA
1 TTAAATTAGGAA
*
22795023 TTAGATTAGGA
1 TTAAATTAGGA
22795034 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:22796094 original size:11 final size:11
Alignment explanation
Indices: 22796078--22796103 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22796068 TAGGAAAGAT
22796078 ATATCTACAAG
1 ATATCTACAAG
22796089 ATATCTACAAG
1 ATATCTACAAG
22796100 ATAT
1 ATAT
22796104 TTGCCAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (11 bp):
ATATCTACAAG
Found at i:22798932 original size:21 final size:21
Alignment explanation
Indices: 22798908--22798968 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
22798898 CGACACATAA
* *
22798908 GTGCTAGAAATGATACACGAG
1 GTGCTAGAAACGACACACGAG
* *
22798929 GTGCTTGATACGACACACGAG
1 GTGCTAGAAACGACACACGAG
*
22798950 GTGCTTGATATACGACACA
1 GTGCTAGA-A-ACGACACA
22798969 TAAAGTGCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 25 0.76
23 8 0.24
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (21 bp):
GTGCTAGAAACGACACACGAG
Found at i:22798966 original size:23 final size:21
Alignment explanation
Indices: 22798922--22798968 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 21
22798912 TAGAAATGAT
22798922 ACACGAGGTGCTTGATACGAC
1 ACACGAGGTGCTTGATACGAC
22798943 ACACGAGGTGCTTGATATACGAC
1 ACACGAGGTGCTTG--ATACGAC
22798966 ACA
1 ACA
22798969 TAAAGTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.58
23 10 0.42
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (21 bp):
ACACGAGGTGCTTGATACGAC
Found at i:22798976 original size:23 final size:23
Alignment explanation
Indices: 22798929--22798981 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
22798919 GATACACGAG
* *
22798929 GTGCTTG--ATACGACACACGAG
1 GTGCTTGATATACGACACACAAA
*
22798950 GTGCTTGATATACGACACATAAA
1 GTGCTTGATATACGACACACAAA
*
22798973 GTGCCTGAT
1 GTGCTTGAT
22798982 CGGCAAAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 7 0.27
23 19 0.73
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (23 bp):
GTGCTTGATATACGACACACAAA
Found at i:22799845 original size:23 final size:23
Alignment explanation
Indices: 22799806--22799850 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22799796 TGACTTATTA
*
22799806 TTATTATAATAATAATAAATATC
1 TTATTATAATAAAAATAAATATC
*
22799829 TTATT-TAATAACAAATATATAT
1 TTATTATAATAA-AAATAAATAT
22799851 ATTACAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATTATAATAAAAATAAATATC
Found at i:22800135 original size:16 final size:16
Alignment explanation
Indices: 22800090--22800139 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
22800080 AGTAATAATT
*
22800090 TAATAAT-ATAAATTA
1 TAATAATGATAAATAA
*
22800105 TAAT-TTGATAGAATAA
1 TAATAATGATA-AATAA
22800121 TAATAATGATAAATAA
1 TAATAATGATAAATAA
22800137 TAA
1 TAA
22800140 ATATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TAATAATGATAAATAA
Found at i:22800142 original size:17 final size:17
Alignment explanation
Indices: 22800070--22800139 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 17
22800060 AATTTATTTC
*
22800070 TAATAATAATAGTAATAA
1 TAATAATGATAG-AATAA
*
22800088 TTTAATAAT-ATA-AATTA
1 --TAATAATGATAGAATAA
*
22800105 TAAT-TTGATAGAATAA
1 TAATAATGATAGAATAA
22800121 TAATAATGATA-AATAA
1 TAATAATGATAGAATAA
22800137 TAA
1 TAA
22800140 ATATATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 1 0.02
15 7 0.16
16 16 0.37
17 9 0.21
19 3 0.07
20 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
TAATAATGATAGAATAA
Found at i:22800278 original size:25 final size:27
Alignment explanation
Indices: 22800244--22800305 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 27
22800234 TGGCTTTAAT
* *
22800244 TTAATTTAATTCATAATATGATATTTATAA
1 TTAA-TTAATTAATAATAT-AT-TGTATAA
22800274 TTAATTAATTTAATAATATATTGTATAA
1 TTAATTAA-TTAATAATATATTGTATAA
22800302 TTAA
1 TTAA
22800306 ATTATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.34
29 6 0.21
30 13 0.45
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
TTAATTAATTAATAATATATTGTATAA
Found at i:22802047 original size:13 final size:14
Alignment explanation
Indices: 22802031--22802066 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
22802021 CAATCTCATA
22802031 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
22802044 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
22802057 TCTC-ATTTCA
1 TCTCAATTTCA
22802067 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:22802056 original size:18 final size:19
Alignment explanation
Indices: 22802018--22802058 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
22802008 TGGTTCATGT
22802018 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
22802037 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
22802055 TTTC
1 TTTC
22802059 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:22802233 original size:29 final size:27
Alignment explanation
Indices: 22802158--22802254 Score: 89
Period size: 27 Copynumber: 3.6 Consensus size: 27
22802148 ATACGCGGAT
22802158 TCCTCCCAAACACACCAGAATATCCA-A
1 TCCTCCCAAACACACCAGAATAT-CATA
*
22802185 ----CCCAAACACACCCAGAATATTATAAA
1 TCCTCCCAAACACA-CCAGAATATCAT--A
*
22802211 TCCT-CCATAACACACCAGTATATCATA
1 TCCTCCCA-AACACACCAGAATATCATA
22802238 TCCTCCCAAACACACCA
1 TCCTCCCAAACACACCA
22802255 ATAAGGCATT
Statistics
Matches: 57, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
23 11 0.19
24 9 0.16
26 1 0.02
27 14 0.25
28 3 0.05
29 13 0.23
30 6 0.11
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (27 bp):
TCCTCCCAAACACACCAGAATATCATA
Found at i:22802593 original size:15 final size:15
Alignment explanation
Indices: 22802573--22802619 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
22802563 TATTATATAT
22802573 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
22802588 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
22802603 TTCAATCAATATAAA
1 TTCAATCAATATAAA
22802618 TT
1 TT
22802620 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:22803585 original size:31 final size:32
Alignment explanation
Indices: 22803527--22803590 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
22803517 CATACATTTG
*
22803527 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
22803559 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
22803590 T
1 T
22803591 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:22804122 original size:13 final size:14
Alignment explanation
Indices: 22804104--22804132 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22804094 GATTAACTTC
22804104 ATAAATATTTT-TA
1 ATAAATATTTTCTA
22804117 ATAAATATTTTCTA
1 ATAAATATTTTCTA
22804131 AT
1 AT
22804133 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:22811984 original size:100 final size:100
Alignment explanation
Indices: 22811798--22812002 Score: 277
Period size: 100 Copynumber: 2.0 Consensus size: 100
22811788 TCTTCCTCGG
* * *
22811798 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACTACTTACGCATGCACATTGCAGCAGTATC
1 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACTACCTACCCATGCACATTGCAGCAGTAAC
* * *
22811863 CCAAAACCCCGTACTGAAGAACCACCGGAAAAAGA
66 CCAAAAACCAGTACTGAAGAACCACCGAAAAAAGA
* * * *
22811898 TGGTTTTTGCTAACAATCGCTAAATCCCCTTGGTACTACCTACCCATGCATATTGCAGGAGTAAC
1 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACTACCTACCCATGCACATTGCAGCAGTAAC
* **
22811963 CCAAAAACCAGTTA-TGCAGAACCATTGAAAAAAGA
66 CCAAAAACCAG-TACTGAAGAACCACCGAAAAAAGA
22811998 TGGTT
1 TGGTT
22812003 ACAACTCAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 89 0.98
101 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (100 bp):
TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACTACCTACCCATGCACATTGCAGCAGTAAC
CCAAAAACCAGTACTGAAGAACCACCGAAAAAAGA
Found at i:22813970 original size:18 final size:18
Alignment explanation
Indices: 22813947--22813984 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22813937 CTGCTCCGCC
22813947 TCATATTCAATCCTTGTG
1 TCATATTCAATCCTTGTG
22813965 TCATATTCAATCCTTGTG
1 TCATATTCAATCCTTGTG
22813983 TC
1 TC
22813985 TAACACATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (18 bp):
TCATATTCAATCCTTGTG
Found at i:22815293 original size:20 final size:20
Alignment explanation
Indices: 22815268--22815310 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
22815258 TAATTTCAAA
22815268 AAATTACAATTTAAATTACT
1 AAATTACAATTTAAATTACT
*
22815288 AAATTATAATTTAAATTACT
1 AAATTACAATTTAAATTACT
22815308 AAA
1 AAA
22815311 CTATTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTACAATTTAAATTACT
Found at i:22822126 original size:26 final size:26
Alignment explanation
Indices: 22822095--22822202 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22822085 TGAAATGCCC
*
22822095 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22822121 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22822147 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22822173 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22822199 ATCA
1 ATCA
22822203 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22825119 original size:21 final size:21
Alignment explanation
Indices: 22825068--22825111 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
22825058 AGGATTATAC
22825068 ATATGATTATCACTGTGAGAA
1 ATATGATTATCACTGTGAGAA
22825089 ATATGATTATCACTGTGAGAA
1 ATATGATTATCACTGTGAGAA
22825110 AT
1 AT
22825112 GTTGTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (21 bp):
ATATGATTATCACTGTGAGAA
Found at i:22829121 original size:14 final size:15
Alignment explanation
Indices: 22829088--22829123 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22829078 TTTTTTAAAG
22829088 AAAAATGAATATTAT
1 AAAAATGAATATTAT
* *
22829103 AAAAATGAATGTTGT
1 AAAAATGAATATTAT
22829118 AAAAAT
1 AAAAAT
22829124 ATTAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTAT
Found at i:22829647 original size:16 final size:16
Alignment explanation
Indices: 22829614--22829658 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22829604 AGTTGAATTC
*
22829614 TAAAAGTTATAAGGAT
1 TAAAAGTTATAAGAAT
22829630 TAAATAGTTATAA-AAT
1 TAAA-AGTTATAAGAAT
*
22829646 TAAAAGTGATAAG
1 TAAAAGTTATAAG
22829659 TCCTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
TAAAAGTTATAAGAAT
Found at i:22830024 original size:20 final size:22
Alignment explanation
Indices: 22829999--22830041 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
22829989 TGGTGTAAAT
*
22829999 TGAAAGTTTA-TGATAG-GAAA
1 TGAAAGGTTATTGATAGAGAAA
22830019 TGAAAGGTTATTGATAGAGAAA
1 TGAAAGGTTATTGATAGAGAAA
22830041 T
1 T
22830042 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (22 bp):
TGAAAGGTTATTGATAGAGAAA
Found at i:22830760 original size:29 final size:29
Alignment explanation
Indices: 22830693--22830761 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
22830683 TGTGTGTACC
* *
22830693 ATGTGAAAAAGGATAACTTCGGCTATCGA
1 ATGTGAAAAGGGATAACTTCGACTATCGA
* *
22830722 ATGTGAAAAGGGATAGCTTCGACTATTGA
1 ATGTGAAAAGGGATAACTTCGACTATCGA
22830751 ATGTGAAAAGG
1 ATGTGAAAAGG
22830762 AAAGGTATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.25
Consensus pattern (29 bp):
ATGTGAAAAGGGATAACTTCGACTATCGA
Found at i:22830833 original size:65 final size:65
Alignment explanation
Indices: 22830754--22831024 Score: 228
Period size: 65 Copynumber: 4.1 Consensus size: 65
22830744 CTATTGAATG
* * *
22830754 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGCTATGTACATTTTGTGTGTACACT
1 TGAAAAGGATAGGTATACTTTGTGTATACCACATGAAAAGGATATGTACACTTTGTGTGTACACT
* * * * * * * *
22830819 TGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAATGAAAGGTATACTTTGTGTATATCAC
1 TGAAAAGGATAGGTATACTTTGTGTATACCACATGAAAAGGATATGTACACTTTGTGTGTA-CAC
22830884 T
65 T
* * * * * *
22830885 TGAAAAGGAAATGTACACTATATGTGTAT---ACTTGAAAAGGTTATGTGCACTTTGTGTGTACA
1 TGAAAAGGATAGGTATACT-T-TGTGTATACCACATGAAAAGGATATGTACACTTTGTGTGTAC-
*
22830947 AAT
63 ACT
* * * * *
22830950 TGAAAAGGGTATGTATACTTTGTGTATACCACTTGAAAAGGGA-ATGTGCACTATG-GATGTACA
1 TGAAAAGGATAGGTATACTTTGTGTATACCACATGAAAA-GGATATGTACACTTTGTG-TGTAC-
22831013 ACT
63 ACT
*
22831016 AGAAAAGGA
1 TGAAAAGGA
22831025 AGGGTCCATC
Statistics
Matches: 163, Mismatches: 34, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
63 7 0.04
64 2 0.01
65 91 0.56
66 53 0.33
67 3 0.02
68 7 0.04
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (65 bp):
TGAAAAGGATAGGTATACTTTGTGTATACCACATGAAAAGGATATGTACACTTTGTGTGTACACT
Found at i:22830874 original size:98 final size:98
Alignment explanation
Indices: 22830754--22831003 Score: 304
Period size: 98 Copynumber: 2.6 Consensus size: 98
22830744 CTATTGAATG
* ** * * *
22830754 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGCTATGTACATTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAATGTACACTATATGTGTACACT
* * *
22830819 TGGAAAGGTTAGGTATACTTTGTGTATAC-CAT
66 TGAAAAGGTTAGGTACACTTTGTGTATACAAAT
* * *
22830851 ATGAAAATGAAAGGTATACTTTGTGTATATCACTTGAAAAGGAAATGTACACTATATGTGTATAC
1 -TGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAATGTACACTATATGTGTACAC
* * *
22830916 TTGAAAAGGTTATGTGCACTTTGTGTGTACAAAT
65 TTGAAAAGGTTAGGTACACTTTGTGTATACAAAT
** * * *
22830950 TGAAAAGGGTATGTATACTTTGTGTATACCACTTGAAAAGGGAATGTGCACTAT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAATGTACACTAT
22831004 GGATGTACAA
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
98 127 0.98
99 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (98 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAATGTACACTATATGTGTACACT
TGAAAAGGTTAGGTACACTTTGTGTATACAAAT
Found at i:22830991 original size:33 final size:33
Alignment explanation
Indices: 22830754--22830990 Score: 205
Period size: 33 Copynumber: 7.2 Consensus size: 33
22830744 CTATTGAATG
* * *
22830754 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGATATGTATACTTTGTGTATACCACT
* * * *
22830787 TGAAAAGGCTATGTACATTTTGTGTGTA-CACT
1 TGAAAAGGATATGTATACTTTGTGTATACCACT
* * *
22830819 TGGAAAGGTTAGGTATACTTTGTGTATACCA-T
1 TGAAAAGGATATGTATACTTTGTGTATACCACT
* * * *
22830851 ATGAAAATGAAAGGTATACTTTGTGTATATCACT
1 -TGAAAAGGATATGTATACTTTGTGTATACCACT
* *
22830885 TGAAAAGGAAATGTACACTATATGTGTAT---ACT
1 TGAAAAGGATATGTATACT-T-TGTGTATACCACT
* ** * * *
22830917 TGAAAAGGTTATGTGCACTTTGTGTGTACAAAT
1 TGAAAAGGATATGTATACTTTGTGTATACCACT
*
22830950 TGAAAAGGGTATGTATACTTTGTGTATACCACT
1 TGAAAAGGATATGTATACTTTGTGTATACCACT
22830983 TGAAAAGG
1 TGAAAAGG
22830991 GAATGTGCAC
Statistics
Matches: 164, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
30 6 0.04
31 1 0.01
32 45 0.27
33 103 0.63
34 2 0.01
35 7 0.04
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (33 bp):
TGAAAAGGATATGTATACTTTGTGTATACCACT
Found at i:22833750 original size:21 final size:21
Alignment explanation
Indices: 22833709--22833758 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22833699 ATGAAATGAT
* *
22833709 AAAAAATTATTTTAACCACTA
1 AAAAAATTATATTAACAACTA
22833730 AAAAAATTATAATT-ACAACTA
1 AAAAAATTAT-ATTAACAACTA
*
22833751 AAATAATT
1 AAAAAATT
22833759 TCTATGTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATTATATTAACAACTA
Found at i:22834334 original size:14 final size:13
Alignment explanation
Indices: 22834315--22834344 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
22834305 AATCTCCGGG
22834315 AAAAAAGAAAAAGA
1 AAAAAAG-AAAAGA
22834329 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
22834342 AAA
1 AAA
22834345 GATTTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:22837791 original size:5 final size:6
Alignment explanation
Indices: 22837770--22837807 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
22837760 AATTCAAGTT
*
22837770 AAAATG AAAAAG AAAAAG AAAAAG AAAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG A
22837808 CATAGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:22842243 original size:29 final size:30
Alignment explanation
Indices: 22842197--22842253 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
22842187 AAGTAATCTA
* *
22842197 ACTCTTTTTAAAAGATTGATGATCAATTCG
1 ACTCTTTTTAAAAAATTGAAGATCAATTCG
*
22842227 ACTC-TTTTAAAAAATTGAAGGTCAATT
1 ACTCTTTTTAAAAAATTGAAGATCAATT
22842254 TTAGTTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (30 bp):
ACTCTTTTTAAAAAATTGAAGATCAATTCG
Found at i:22843017 original size:19 final size:19
Alignment explanation
Indices: 22842990--22843037 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
22842980 CTAGCAGGAT
22842990 AAAAA-TAAAAA-TAAAAG
1 AAAAAGTAAAAAGTAAAAG
22843007 CAAAAAGTAAAAAGTAAAAG
1 -AAAAAGTAAAAAGTAAAAG
*
22843027 TAAAAGTAAAA
1 AAAAAGTAAAA
22843038 GGCCCACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAGTAAAAAGTAAAAG
Found at i:22843038 original size:6 final size:6
Alignment explanation
Indices: 22842989--22843038 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
22842979 TCTAGCAGGA
* * *
22842989 TAAAAA TAAAAA TAAAAG CAAAAAG TAAAAAG TAAAAG TAAAAG TAAAAG
1 TAAAAG TAAAAG TAAAAG -TAAAAG T-AAAAG TAAAAG TAAAAG TAAAAG
22843039 GCCCACACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 28 0.72
7 11 0.28
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (6 bp):
TAAAAG
Found at i:22844111 original size:23 final size:24
Alignment explanation
Indices: 22844071--22844121 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
22844061 CTGCCTCCAC
** *
22844071 ATTAAATATATATTATAA-ATTTA
1 ATTAAATATATAAAATAATATTAA
*
22844094 ATTAAATCTATAAAATAATATTAA
1 ATTAAATATATAAAATAATATTAA
22844118 ATTA
1 ATTA
22844122 TAACACACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTAAATATATAAAATAATATTAA
Found at i:22846617 original size:13 final size:13
Alignment explanation
Indices: 22846596--22846633 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
22846586 TTTATCAAGT
*
22846596 AAATTTTTTAATC
1 AAATATTTTAATC
22846609 AAATATTTTAATC
1 AAATATTTTAATC
22846622 AAATATTTTAAT
1 AAATATTTTAAT
22846634 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTAATC
Found at i:22847952 original size:20 final size:18
Alignment explanation
Indices: 22847924--22847962 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
22847914 TACTTATTAT
*
22847924 TTAATAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
22847944 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
22847962 T
1 T
22847963 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:22847999 original size:28 final size:28
Alignment explanation
Indices: 22847960--22848013 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
22847950 AATATAATAT
* *
22847960 AATAATATAAAGTA-AAAGAAATCAAAGA
1 AATAATAAAAAGAATAAAGAAA-CAAAGA
22847988 AATAATAAAAAGAATAAAGAAACAAA
1 AATAATAAAAAGAATAAAGAAACAAA
22848014 AGTAAGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (28 bp):
AATAATAAAAAGAATAAAGAAACAAAGA
Found at i:22854504 original size:16 final size:16
Alignment explanation
Indices: 22854483--22854516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22854473 ATATTAAATG
*
22854483 ATTTTATAAATTTATA
1 ATTTTATAAATTAATA
*
22854499 ATTTTATTAATTAATA
1 ATTTTATAAATTAATA
22854515 AT
1 AT
22854517 ATATTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATAAATTAATA
Found at i:22855055 original size:17 final size:17
Alignment explanation
Indices: 22855035--22855067 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22855025 TTAATTATTA
22855035 TAAAT-AATATATTAGAT
1 TAAATAAATA-ATTAGAT
22855052 TAAATAAATAATTAGA
1 TAAATAAATAATTAGA
22855068 ATTTGCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAAATAAATAATTAGAT
Found at i:22863137 original size:35 final size:36
Alignment explanation
Indices: 22863098--22863182 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
22863088 ATCCGTCTAT
22863098 GGCAACCTTTAAAAGGTTGGGAT-TGACTCATTTAA
1 GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
* * **
22863133 GGCAACCTTAAAAAGGTTGGGATATGCCTTGTTTAA
1 GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
* *
22863169 AGCAACCCTTAAAA
1 GGCAACCTTTAAAA
22863183 AAATTTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 22 0.52
36 20 0.48
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (36 bp):
GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
Found at i:22863288 original size:37 final size:36
Alignment explanation
Indices: 22863022--22863382 Score: 189
Period size: 38 Copynumber: 9.8 Consensus size: 36
22863012 TAAACCTGTA
* * * * *
22863022 TAAGGCAA-CTATAAAAAGGTTGGTATAGTTCTTGTC
1 TAAGGCAACCTTTAAAAAGGTTGGGATAG-ACATGTT
* * *
22863058 TAAGGCAACTTTTAAGAATA-GTTGGGATAGATC-CGTC
1 TAAGGCAACCTTTAA-AA-AGGTTGGGATAGA-CATGTT
* * *
22863095 TATGGCAACCTTT-AAAAGGTTGGGATTGAC-TCATT
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGACAT-GTT
* *
22863130 TAAGGCAACC-TTAAAAAGGTTGGGATATGCCTTGTT
1 TAAGGCAACCTTTAAAAAGGTTGGGATA-GACATGTT
* * ** * * *
22863166 TAAAGCAACCCTTAAAAAAATTTGGTATAAACCT-TAT
1 TAAGGCAA-CCTTTAAAAAGGTTGGGATAGACATGT-T
* * * * * *
22863203 CTAAAGCAACTTTTTAAAAAAGTTGAGATAGATCTTGTC
1 -TAAGGCAAC-CTTTAAAAAGGTTGGGATAGA-CATGTT
* *
22863242 TAAGGCAACCTTTAGGAAAGGTTGGGATAGGCATGTT
1 TAAGGCAACCTTTA-AAAAGGTTGGGATAGACATGTT
* * * *
22863279 TAAGGCAACCTTTTAAAAATGTTAGAATAGACATTGTC
1 TAAGGCAACC-TTTAAAAAGGTTGGGATAGACA-TGTT
* * *
22863317 TAAGGTAACCTTAAAAAAAGGTTGGGATAGACTTGTT
1 TAAGGCAACCTT-TAAAAAGGTTGGGATAGACATGTT
* * *
22863354 TAAAGCAA-CGTTAAAAAGGTTGCGATAGA
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGA
22863383 TTCTTCTAAG
Statistics
Matches: 248, Mismatches: 57, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
34 4 0.02
35 51 0.21
36 23 0.09
37 67 0.27
38 99 0.40
39 3 0.01
40 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (36 bp):
TAAGGCAACCTTTAAAAAGGTTGGGATAGACATGTT
Found at i:22863309 original size:75 final size:75
Alignment explanation
Indices: 22863204--22863405 Score: 209
Period size: 75 Copynumber: 2.7 Consensus size: 75
22863194 AAACCTTATC
* * **
22863204 TAAAGCAACTTTTTAAAAAAGTTGAGATAGATC-TTGTCTAAGGCAACCTTTAGGAAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGA-CATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
*
22863268 ATAGGCATGTT
65 ATAGACATGTT
* * *
22863279 TAAGGCAACCTTTTAAAAATGTT-AGAATAGACATTGTCTAAGGTAACCTTAAAAAAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAG-ATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
*
22863343 ATAGACTTGTT
65 ATAGACATGTT
* * * * *
22863354 TAAAGCAA-C-GTTAAAAAGGTTGCGATAG--ATTCTTCTAAGGTAACCTTAAAAA
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATT-GTCTAAGGCAACCTTAAAAA
22863406 CGTTGGTATA
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
71 3 0.03
72 19 0.17
73 14 0.13
74 5 0.05
75 68 0.62
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (75 bp):
TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGGA
TAGACATGTT
Found at i:22863403 original size:35 final size:36
Alignment explanation
Indices: 22863315--22863410 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 36
22863305 ATAGACATTG
* *
22863315 TCTAAGGTAACCTTAAAAAAAGGTTGGGATAGACTTGT
1 TCTAAGGTAACCTT--AAAAAGGTTGCGATAGACTTCT
* * *
22863353 T-TAAAGCAACGTTAAAAAGGTTGCGATAGA-TTCT
1 TCTAAGGTAACCTTAAAAAGGTTGCGATAGACTTCT
*
22863387 TCTAAGGTAACCTTAAAAACGTTG
1 TCTAAGGTAACCTTAAAAAGGTTG
22863411 GTATATATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
34 4 0.08
35 34 0.71
37 9 0.19
38 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
TCTAAGGTAACCTTAAAAAGGTTGCGATAGACTTCT
Found at i:22867709 original size:17 final size:17
Alignment explanation
Indices: 22867687--22867719 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22867677 TGCATATTTG
22867687 AATAAAAACAACCCAAA
1 AATAAAAACAACCCAAA
*
22867704 AATAAAAACAGCCCAA
1 AATAAAAACAACCCAA
22867720 GGAAATATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (17 bp):
AATAAAAACAACCCAAA
Found at i:22873653 original size:35 final size:35
Alignment explanation
Indices: 22873614--22873682 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
22873604 ACTTGCCTCT
*
22873614 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCAC
22873649 TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
22873683 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.51, G:0.10, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAACACCAC
Found at i:22874545 original size:3 final size:3
Alignment explanation
Indices: 22874530--22874582 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
22874520 GTTATTTTCA
* * *
22874530 TAT TAT TAA TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
22874576 TAT TAT T
1 TAT TAT T
22874583 GTACATTAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:22874921 original size:22 final size:23
Alignment explanation
Indices: 22874893--22874947 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
22874883 AATTTTTTTC
22874893 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
22874915 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
22874939 -TA-ATATTAT
1 ATATATATTAT
22874948 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:22887466 original size:74 final size:74
Alignment explanation
Indices: 22887353--22888130 Score: 1011
Period size: 74 Copynumber: 10.5 Consensus size: 74
22887343 CTTCGTTTTC
* ** *
22887353 AAAATCAACTTATATTGCGAGAAATGGGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
22887418 ATTTTCAAA
66 ATTTTCAAA
22887427 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
22887492 ATTTTCAAA
66 ATTTTCAAA
*
22887501 AAAATCAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
22887566 ATTTTCAAA
66 ATTTTCAAA
* *
22887575 AAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
22887640 ATTTT-AAA
66 ATTTTCAAA
* *
22887648 AAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
*
22887713 ATTTT-TAA
66 ATTTTCAAA
* * * *
22887721 AAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
*
22887786 GTTTTCAAA
66 ATTTTCAAA
** ** *
22887795 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTT-AATTTC
22887859 TATTTTC--A
65 TATTTTCAAA
* *
22887867 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTTAATTT
* * *
22887932 GTGTTGTCAAA
64 CTATTTTCAAA
* * ** * *
22887943 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACATGCTGAGGT-ATTGTCAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT-TTAA---T
*
22888007 TTGTATGTTTC--A
62 TTCTAT-TTTCAAA
** * * *
22888019 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGATGAGGT-ATTGTCAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT-TTAA---T
*
22888083 TTGTATGTTTC--A
62 TTCTAT-TTTCAAA
*
22888095 AAAATCAACTCATATTGCGAGAGGTGAATTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
22888131 AGGACCGCTG
Statistics
Matches: 649, Mismatches: 43, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
72 36 0.06
73 149 0.23
74 305 0.47
75 5 0.01
76 145 0.22
77 6 0.01
78 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCT
ATTTTCAAA
Found at i:22888803 original size:35 final size:33
Alignment explanation
Indices: 22888742--22888808 Score: 116
Period size: 35 Copynumber: 2.0 Consensus size: 33
22888732 ACTTGCCTCT
22888742 TCCCACTTCCCATGCTGCTGCCACCAGCACCAC
1 TCCCACTTCCCATGCTGCTGCCACCAGCACCAC
22888775 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACT-TCCCATGCTG-CTGCCACCAGCACCA
22888809 TCACACACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 7 0.22
34 10 0.31
35 15 0.47
ACGTcount: A:0.18, C:0.51, G:0.12, T:0.19
Consensus pattern (33 bp):
TCCCACTTCCCATGCTGCTGCCACCAGCACCAC
Found at i:22889660 original size:3 final size:3
Alignment explanation
Indices: 22889645--22889701 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
22889635 GTTATTTTCA
* *
22889645 TAT TAT TAA TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
22889691 TAT TAT CAT TA
1 TAT TAT TAT TA
22889702 ATGTTACTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:22889910 original size:22 final size:23
Alignment explanation
Indices: 22889882--22889939 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
22889872 AGTCAATTTT
22889882 TTTATATATATTATATGAATA-A
1 TTTATATATATTATATGAATATA
* *
22889904 TTTATATATAATATTATGTATATA
1 TTTATATATATTA-TATGAATATA
22889928 TTT-TA-ATATTAT
1 TTTATATATATTAT
22889940 CAGTTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 17 0.55
23 9 0.29
24 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTATATATATTATATGAATATA
Found at i:22904731 original size:48 final size:48
Alignment explanation
Indices: 22904660--22904751 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
22904650 TAAGTAATTT
*
22904660 AAGTTGAACCACTATAGATTCTTGAATTTCCTTTAATTACCATAACTG
1 AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTACCATAACTG
*
22904708 AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTGCCATA
1 AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTACCATA
22904752 TTTTCTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (48 bp):
AAGTTGAACCACTATAAATTCTTGAATTTCCTTTAATTACCATAACTG
Found at i:22907815 original size:20 final size:20
Alignment explanation
Indices: 22907790--22907929 Score: 63
Period size: 20 Copynumber: 6.8 Consensus size: 20
22907780 AAAAAATATT
22907790 AATAATAGTAATAAATAGAA
1 AATAATAGTAATAAATAGAA
* *
22907810 AATAATAGTACATTAATAATAA
1 AATAATAGTA-ATAAAT-AGAA
* * *
22907832 TAATAATATATAAAAAATAGGA
1 -AATAATA-GTAATAAATAGAA
* * *
22907854 AATAATAAT-AT-GATAAAA
1 AATAATAGTAATAAATAGAA
* *
22907872 AATAATATGTTAATAAAAATAA
1 AATAATA-G-TAATAAATAGAA
* *
22907894 CAGTAGTAGTAAT-AATA-ATA
1 -AATAATAGTAATAAATAGA-A
22907914 AAGTAATAGTAATAAA
1 AA-TAATAGTAATAAA
22907930 AATAAAAATA
Statistics
Matches: 88, Mismatches: 20, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
18 11 0.12
19 3 0.03
20 26 0.30
21 20 0.23
22 10 0.11
23 16 0.18
24 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (20 bp):
AATAATAGTAATAAATAGAA
Found at i:22907825 original size:34 final size:34
Alignment explanation
Indices: 22907758--22907851 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 34
22907748 AATAATATAA
* * * *
22907758 TAATAATGATAATACTAAAGAAAAAA-A--ATAT
1 TAATAATAATAATAATATAGAAAAAATAGTACAT
*
22907789 TAATAATAGTAATAA-ATAGAAAATAATAGTACAT
1 TAATAATAATAATAATATAGAAAA-AATAGTACAT
*
22907823 TAATAATAATAATAATATATAAAAAATAG
1 TAATAATAATAATAATATAGAAAAAATAG
22907852 GAAATAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.14
31 14 0.27
32 1 0.02
34 22 0.43
35 7 0.14
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (34 bp):
TAATAATAATAATAATATAGAAAAAATAGTACAT
Found at i:22907933 original size:20 final size:20
Alignment explanation
Indices: 22907882--22907935 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
22907872 AATAATATGT
*
22907882 TAATAAAAATAACAGTAGTAG
1 TAATAAAAATAA-AGTAATAG
*
22907903 TAATAATAATAAAGTAATAG
1 TAATAAAAATAAAGTAATAG
22907923 TAATAAAAATAAA
1 TAATAAAAATAAA
22907936 AATAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
TAATAAAAATAAAGTAATAG
Found at i:22907999 original size:3 final size:3
Alignment explanation
Indices: 22907657--22907979 Score: 98
Period size: 3 Copynumber: 107.0 Consensus size: 3
22907647 AATGTAAGAG
* * *
22907657 AAT AAT AA- AA- AATT AAT AAT AAT TAT AAT AGT AAA AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
22907701 AGT AAT AAT AGCT AAGT AGGA- AAT AAT AAC AAT ACATT AAT AAG ACA-
1 AAT AAT AAT A-AT AA-T A--AT AAT AAT AAT AAT A-A-T AAT AAT A-AT
* * * * * *
22907748 AAT AAT -AT AAT AAT AAT GAT AAT ACT AAAG AAA AAA AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * *
22907793 AAT AGT AAT AAAT AGAA AAT AAT AGT ACATT AAT AAT AAT AAT AAT ATAT
1 AAT AAT AAT -AAT A-AT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT A-AT
* **
22907843 AA- AA- AAT AGGA- AAT AAT AAT -AT GAT AA- AA- AAT AAT -AT GTT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
22907883 AAT AAA AAT AAC AGT AGT AGT AAT AAT AAT AA- AGT AAT AGT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
22907930 AAT AAA AAT AAA AAT AAT AGT AAT AAT -GT ATT AAT AAG AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22907977 AAT
1 AAT
22907980 GAAACGAGAT
Statistics
Matches: 236, Mismatches: 57, Indels: 54
0.68 0.16 0.16
Matches are distributed among these distances:
2 23 0.10
3 186 0.79
4 21 0.09
5 5 0.02
6 1 0.00
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:22908048 original size:12 final size:12
Alignment explanation
Indices: 22908031--22908059 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22908021 AAAGAAATAG
22908031 TAATAATAGTAA
1 TAATAATAGTAA
22908043 TAATAATAGTAA
1 TAATAATAGTAA
22908055 TAATA
1 TAATA
22908060 TAAACAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:22908068 original size:21 final size:21
Alignment explanation
Indices: 22908026--22908068 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22908016 ACATAAAAGA
*
22908026 AATAGTAATAATAGTAATAAT
1 AATAGTAATAATAGTAACAAT
22908047 AATAGTAATAATA-TAAACAAT
1 AATAGTAATAATAGT-AACAAT
22908068 A
1 A
22908069 TATGTATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (21 bp):
AATAGTAATAATAGTAACAAT
Found at i:22908186 original size:3 final size:3
Alignment explanation
Indices: 22908178--22908211 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22908168 AAGTACAAGT
22908178 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22908212 GTAAATGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22912640 original size:70 final size:73
Alignment explanation
Indices: 22912565--22912702 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 73
22912555 TTTGCGGGAG
* *
22912565 GTAAAAATTTT-G-GGAGAAAGTAAAAGGAAAAAAA-TTGGGGGTTTGAGGGG-AGT-AAATTTT
1 GTAAAAATTTTGGAGGA-AAAATAAAA-GAAAAAAATTTAGGGGTTTGAGGGGAAGTAAAATTTT
22912625 TTTAAGAGAA
64 TTTAAGAGAA
* *
22912635 GTAAAAGTTTTGGAGGAAAAATAAAAGAAAAAAAGTTTTAGGGGTTTGGGGGGAAGTAAAATTTT
1 GTAAAAATTTTGGAGGAAAAATAAAAGAAAAAAA--TTTAGGGGTTTGAGGGGAAGTAAAATTTT
22912700 TTT
64 TTT
22912703 GGGGAAAGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
70 18 0.32
71 9 0.16
72 3 0.05
73 14 0.25
74 3 0.05
75 10 0.18
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (73 bp):
GTAAAAATTTTGGAGGAAAAATAAAAGAAAAAAATTTAGGGGTTTGAGGGGAAGTAAAATTTTTT
TAAGAGAA
Found at i:22916427 original size:21 final size:21
Alignment explanation
Indices: 22916385--22916427 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
22916375 TGGCTACTCC
* *
22916385 AATAAAAATTAATTAATTTTT
1 AATAAAAATTAAATAATATTT
22916406 AATAAAAATTAAAATAA-ATTT
1 AATAAAAATT-AAATAATATTT
22916427 A
1 A
22916428 TTTCGCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAAATTAAATAATATTT
Found at i:22924959 original size:197 final size:197
Alignment explanation
Indices: 22924617--22925007 Score: 692
Period size: 197 Copynumber: 2.0 Consensus size: 197
22924607 TCCAATCCTT
*
22924617 AAGGGCGCACATGGGCCAAGGTAGTAAACCCAAGTTTTCAGGATACAACTGTGATTGAACAACCA
1 AAGGGCACACATGGGCCAAGGTAGTAAACCCAAGTTTTCAGGATACAACTGTGATTGAACAACCA
*
22924682 TAATAATAACTTCTTGTAAAAATTCAAACAAAGAAGCAGAGAAGGGAAGCAAAAAAAATGGGGTT
66 TAATAATAACTTATTGTAAAAATTCAAACAAAGAAGCAGAGAAGGGAAGCAAAAAAAATGGGGTT
* *
22924747 TGGTTTGAAAGCTAAAAAGCTAAGGCTTTCTCCATATACTTATATCAGAATGAAAATAAAGCCAC
131 TGGTTTGAAAGCTAAAAAACTAAGACTTTCTCCATATACTTATATCAGAATGAAAATAAAGCCAC
22924812 GC
196 GC
* * *
22924814 AAGGGCACACATGGGCCAATGTAGTAAACTCAAGTTTTCAGGATACAACTGTGATTGAACAACCG
1 AAGGGCACACATGGGCCAAGGTAGTAAACCCAAGTTTTCAGGATACAACTGTGATTGAACAACCA
* *
22924879 TAATAATAACTTATTGTAAAAATTTAAACAAAGAAGCAGAGAAGGGAAGCAAAAAAAATTGGGTT
66 TAATAATAACTTATTGTAAAAATTCAAACAAAGAAGCAGAGAAGGGAAGCAAAAAAAATGGGGTT
*
22924944 TGGTTTGAAAGCTAAAAAACTAAGACTTTCTCCATATATTTATATCAGAATGAAAATAAAGCCA
131 TGGTTTGAAAGCTAAAAAACTAAGACTTTCTCCATATACTTATATCAGAATGAAAATAAAGCCA
22925008 TGCCCATTAT
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
197 184 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (197 bp):
AAGGGCACACATGGGCCAAGGTAGTAAACCCAAGTTTTCAGGATACAACTGTGATTGAACAACCA
TAATAATAACTTATTGTAAAAATTCAAACAAAGAAGCAGAGAAGGGAAGCAAAAAAAATGGGGTT
TGGTTTGAAAGCTAAAAAACTAAGACTTTCTCCATATACTTATATCAGAATGAAAATAAAGCCAC
GC
Found at i:22927006 original size:56 final size:56
Alignment explanation
Indices: 22926937--22927051 Score: 194
Period size: 56 Copynumber: 2.1 Consensus size: 56
22926927 AGCCATGAAT
* *
22926937 ATTTTTATAAATATTTACGAAGTGTTATTAAGGTTGTATTAAATTTTCATTAAGAA
1 ATTTTTATAAATATTTACAAAGTGTTATTAAGGTTGTATTAAAGTTTCATTAAGAA
* *
22926993 ATTTTTATAAATATTTACAAAGTGTTATTAAGGTTGTGTTAAAGTTTCGTTAAGAA
1 ATTTTTATAAATATTTACAAAGTGTTATTAAGGTTGTATTAAAGTTTCATTAAGAA
22927049 ATT
1 ATT
22927052 GTAATGTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (56 bp):
ATTTTTATAAATATTTACAAAGTGTTATTAAGGTTGTATTAAAGTTTCATTAAGAA
Found at i:22927955 original size:15 final size:15
Alignment explanation
Indices: 22927935--22927968 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22927925 TATGGTTTTG
22927935 ATTGTTTAATATAT-A
1 ATTGTTT-ATATATGA
22927950 ATTGTTTATATATGA
1 ATTGTTTATATATGA
22927965 ATTG
1 ATTG
22927969 AGTTTATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGTTTATATATGA
Found at i:22928085 original size:45 final size:45
Alignment explanation
Indices: 22928036--22928137 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
22928026 ATACAAGAAA
* *
22928036 CGAGTAAGACCATGA-TTGAAAGATGTTATGGCATCACT-ATTCTAT
1 CGAGTAAGACCATGACTT-AAAGACGTTATGACATCA-TGATTCTAT
22928081 CGAGTAAGACCATGACTTAAAGACGTTATGACATCATGATTCTAT
1 CGAGTAAGACCATGACTTAAAGACGTTATGACATCATGATTCTAT
22928126 CGAGTAAGACCA
1 CGAGTAAGACCA
22928138 CAGCTAAAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
44 1 0.02
45 50 0.94
46 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (45 bp):
CGAGTAAGACCATGACTTAAAGACGTTATGACATCATGATTCTAT
Found at i:22928148 original size:45 final size:45
Alignment explanation
Indices: 22928036--22928162 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 45
22928026 ATACAAGAAA
* * * *
22928036 CGAGTAAGACCATGATTGAAAGATGTTATGGCATCACTATTCTAT
1 CGAGTAAGACCAAGACTAAAAGACGTTATGGCATCACTATTCTAT
* * *
22928081 CGAGTAAGACCATGACTTAAAGACGTTATGACATCA-TGATTCTAT
1 CGAGTAAGACCAAGACTAAAAGACGTTATGGCATCACT-ATTCTAT
*
22928126 CGAGTAAGACCACAG-CTAAAAGACGCTATGGCATCAC
1 CGAGTAAGACCA-AGACTAAAAGACGTTATGGCATCAC
22928163 AAATCAAAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 1 0.01
45 69 0.97
46 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (45 bp):
CGAGTAAGACCAAGACTAAAAGACGTTATGGCATCACTATTCTAT
Found at i:22928606 original size:49 final size:49
Alignment explanation
Indices: 22928499--22928596 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
22928489 CGAGCATGAA
* * * *
22928499 AAAGGAAAAGTATGTGTTCAAATGAACTATGTCATGAAGTTATAAAAAG
1 AAAGGAAATGTATGTATTCAAATGAACTATGTCAAGAAATTATAAAAAG
*
22928548 AAAGGAAATGTATGTATTCGAATGAACTATGTCAAGAAATTATAAAAAG
1 AAAGGAAATGTATGTATTCAAATGAACTATGTCAAGAAATTATAAAAAG
22928597 GATTGAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (49 bp):
AAAGGAAATGTATGTATTCAAATGAACTATGTCAAGAAATTATAAAAAG
Found at i:22931356 original size:23 final size:23
Alignment explanation
Indices: 22931326--22931372 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22931316 AATACTGCTG
22931326 ATGCCTTCTTTGTTGTTGTGGTC
1 ATGCCTTCTTTGTTGTTGTGGTC
22931349 ATGCCTTCTTTGTTGTTGTGGTC
1 ATGCCTTCTTTGTTGTTGTGGTC
22931372 A
1 A
22931373 AAAGCCTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.06, C:0.17, G:0.26, T:0.51
Consensus pattern (23 bp):
ATGCCTTCTTTGTTGTTGTGGTC
Found at i:22932863 original size:3 final size:3
Alignment explanation
Indices: 22932852--22932889 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
22932842 AGAAGAAAGG
*
22932852 GAA GGA GAA GAA -AA GAA G-A GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
22932890 GGGAAGGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22949950 original size:64 final size:63
Alignment explanation
Indices: 22949870--22950074 Score: 209
Period size: 65 Copynumber: 3.2 Consensus size: 63
22949860 TTTCATGAAT
* * * *
22949870 TGAATTTAAAGTTATGAATTATATATATATATATAGTTTGAATGTATGATATAAGTTCTTTGAGC
1 TGAATTTAATG-TATGAATT-TATATATATATATGGTTCGAATATATGATATAAGTTCTTTGAGC
* *
22949935 TGAATTTAATGTATGAATTT-TACATACATATGGTTCGAATATAT-ATATTTCAAGTTC-TTGAG
1 TGAATTTAATGTATGAATTTATATATATATATGGTTCGAATATATGATA--T-AAGTTCTTTGAG
22949997 C
63 C
* * * * * * *
22949998 TGAATTTAATGTATGAATTTCACATACATATGTGGTTCGAATATAGGCTACAAATTCTTTGAGC
1 TGAATTTAATGTATGAATTT-ATATATATATATGGTTCGAATATATGATATAAGTTCTTTGAGC
22950062 TGAATTTTAATGT
1 TGAA-TTTAATGT
22950075 TGTAAATTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
61 3 0.03
62 19 0.16
63 33 0.28
64 24 0.21
65 36 0.31
66 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (63 bp):
TGAATTTAATGTATGAATTTATATATATATATGGTTCGAATATATGATATAAGTTCTTTGAGC
Found at i:22950056 original size:63 final size:62
Alignment explanation
Indices: 22949917--22950074 Score: 196
Period size: 63 Copynumber: 2.5 Consensus size: 62
22949907 TTGAATGTAT
* *
22949917 GATAT-AAGTTCTTTGAGCTGAATTTAATGTATGAATTTTACATACATATGGTTCGAATATA
1 GATATCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
* *
22949978 TATATTTCAAGTTC-TTGAGCTGAATTTAATGTATGAATTTCACATACATATGTGGTTCGAATAT
1 GATA--TCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATA--TGGTTCGAATAT
22950042 A
62 A
*
22950043 GGCTA-CAAATTCTTTGAGCTGAATTTTAATGT
1 -GATATCAAATTCTTTGAGCTGAA-TTTAATGT
22950075 TGTAAATTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
61 3 0.04
63 42 0.50
64 16 0.19
65 21 0.25
66 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (62 bp):
GATATCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
Found at i:22950354 original size:82 final size:82
Alignment explanation
Indices: 22950257--22950416 Score: 311
Period size: 82 Copynumber: 2.0 Consensus size: 82
22950247 GGTGAATTAT
22950257 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
1 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
22950322 AAGTGCCGGTGATATGA
66 AAGTGCCGGTGATATGA
*
22950339 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCT
1 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
22950404 AAGTGCCGGTGAT
66 AAGTGCCGGTGAT
22950417 CCGAATATGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (82 bp):
ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGCCTAGCAGGCT
AAGTGCCGGTGATATGA
Found at i:22950416 original size:41 final size:41
Alignment explanation
Indices: 22950257--22950422 Score: 269
Period size: 41 Copynumber: 4.0 Consensus size: 41
22950247 GGTGAATTAT
* *
22950257 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
* *
22950298 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
*
22950339 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
* *
22950380 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCCGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
22950421 AT
1 AT
22950423 ATGATGAATT
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
Found at i:22952551 original size:121 final size:118
Alignment explanation
Indices: 22952410--22952643 Score: 328
Period size: 121 Copynumber: 2.0 Consensus size: 118
22952400 ACCAAAAATG
* * * *
22952410 TTTACTTATTTTCATTTTAAAGTAATAATAAAAATATTCGTATTTATTATGTATTGCTTATGTTA
1 TTTACTTATTATCATTTTAAAATAATAATAAAAATATTCGTATTTATCATGTATCGCTTATGTTA
* * *
22952475 TGTTTTTATTACGTT-TTTGTTATTT-GCATGTTATTTTTAGTATTTTAATATAATAA
66 TGTTTTT-TT---TTATATATT-TTTGGCATATTATTTTTAGTATTTTAATATAATAA
* *
22952531 TTTACTTATTATCATTTTAAAATAGTAATAAAAATATTCGTATTTATCATGTATCGTTTATGTTA
1 TTTACTTATTATCATTTTAAAATAATAATAAAAATATTCGTATTTATCATGTATCGCTTATGTTA
22952596 TGTTTTTTTTTATATATTTTTGGCATATTATTTTTAGTATTTTAATAT
66 TGTTTTTTTTTATATATTTTTGGCATATTATTTTTAGTATTTTAATAT
22952644 TTTGATGTGG
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
117 5 0.05
118 29 0.28
120 2 0.02
121 66 0.65
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (118 bp):
TTTACTTATTATCATTTTAAAATAATAATAAAAATATTCGTATTTATCATGTATCGCTTATGTTA
TGTTTTTTTTTATATATTTTTGGCATATTATTTTTAGTATTTTAATATAATAA
Found at i:22954483 original size:33 final size:33
Alignment explanation
Indices: 22954441--22954530 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
22954431 ATCTTTGGGT
* * **
22954441 CATATCCACCGCAATATAACACTCCTCTTATTC
1 CATATCCACCGCAATATAACACTCATCTCAGCC
* * * *
22954474 CATATCCACCGTAGTACAACACTCATCTCGGCC
1 CATATCCACCGCAATATAACACTCATCTCAGCC
* *
22954507 CGTATCCACCGCAATATAGCACTC
1 CATATCCACCGCAATATAACACTC
22954531 GCTCGGTCCG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.24
Consensus pattern (33 bp):
CATATCCACCGCAATATAACACTCATCTCAGCC
Found at i:22954562 original size:32 final size:32
Alignment explanation
Indices: 22954500--22954562 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
22954490 CAACACTCAT
*
22954500 CTCGGCCCGTATCCACCGCAATATAGCACTCG
1 CTCGGCCCGTATCCACCGCAATATACCACTCG
* *
22954532 CTCGGTCCGTATCCACTGCAATACT-CCACTC
1 CTCGGCCCGTATCCACCGCAATA-TACCACTC
22954563 CTCCTAGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.22
Consensus pattern (32 bp):
CTCGGCCCGTATCCACCGCAATATACCACTCG
Found at i:22956307 original size:20 final size:20
Alignment explanation
Indices: 22956282--22956319 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22956272 GTTAGTTGGT
22956282 TGAATTAGATTTTAATTAGG
1 TGAATTAGATTTTAATTAGG
* *
22956302 TGAATTTGTTTTTAATTA
1 TGAATTAGATTTTAATTA
22956320 AAAGTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (20 bp):
TGAATTAGATTTTAATTAGG
Found at i:22956794 original size:19 final size:18
Alignment explanation
Indices: 22956758--22956805 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
22956748 AGAAAGTTAC
* *
22956758 AGAGAAAGGAACATGAAA
1 AGAGAAAGAAACAAGAAA
*
22956776 GAGAGAAAGAAAGAAGAAA
1 -AGAGAAAGAAACAAGAAA
*
22956795 AGAAAAAGAAA
1 AGAGAAAGAAA
22956806 AAAGGGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (18 bp):
AGAGAAAGAAACAAGAAA
Found at i:22960621 original size:17 final size:17
Alignment explanation
Indices: 22960599--22960631 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22960589 AATATATATT
22960599 AACCCAAGTACCCAACC
1 AACCCAAGTACCCAACC
*
22960616 AACCCAATTACCCAAC
1 AACCCAAGTACCCAAC
22960632 TCAATCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.09
Consensus pattern (17 bp):
AACCCAAGTACCCAACC
Found at i:22960740 original size:9 final size:9
Alignment explanation
Indices: 22960719--22960786 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
22960709 TTTATACAAA
*
22960719 TAATTCGGT
1 TAATTCGGG
*
22960728 TAATTTGGG
1 TAATTCGGG
*
22960737 TAATTCAGG
1 TAATTCGGG
22960746 TAATTCGGG
1 TAATTCGGG
*
22960755 TAATTCGGT
1 TAATTCGGG
**
22960764 TAATTCGAT
1 TAATTCGGG
*
22960773 TAATTCGGT
1 TAATTCGGG
22960782 TAATT
1 TAATT
22960787 TTATACTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
TAATTCGGG
Found at i:22960742 original size:18 final size:18
Alignment explanation
Indices: 22960719--22960786 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
22960709 TTTATACAAA
*
22960719 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTCGGG
22960737 TAATTCAGG-TAATTCGGG
1 TAATTC-GGTTAATTCGGG
**
22960755 TAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTCGGG
22960773 TAATTCGGTTAATT
1 TAATTCGGTTAATT
22960787 TTATACTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
17 2 0.04
18 41 0.91
19 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:22960758 original size:27 final size:27
Alignment explanation
Indices: 22960719--22960787 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
22960709 TTTATACAAA
22960719 TAATTCGGTTAATTTGGGTAATTC-AGG
1 TAATTCGGTTAATTTGGGTAATTCGA-G
* * * *
22960746 TAATTCGGGTAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTTGGGTAATTCGAG
22960773 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
22960788 TATACTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTTGGGTAATTCGAG
Found at i:22961709 original size:27 final size:27
Alignment explanation
Indices: 22961679--22961735 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
22961669 GATAGGCACA
*
22961679 ACTGGTGCCGCCTA-TCTGATACCCTCC
1 ACTGGTGCCGCCTACT-TGACACCCTCC
22961706 ACTGGTGCCGCCTACTTGACACCCTCC
1 ACTGGTGCCGCCTACTTGACACCCTCC
22961733 ACT
1 ACT
22961736 ACATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.16, C:0.42, G:0.18, T:0.25
Consensus pattern (27 bp):
ACTGGTGCCGCCTACTTGACACCCTCC
Found at i:22968212 original size:19 final size:20
Alignment explanation
Indices: 22968189--22968260 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
22968179 AAAATTACAA
22968189 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
*
22968209 AAAAATTCAAAATAGTTTT-
1 AAAAATTCAAAATAATTTTC
* *
22968228 TAAAATTCAAAAT-ATTTATA
1 AAAAATTCAAAATAATTT-TC
*
22968248 AAAAAATCAAAAT
1 AAAAATTCAAAAT
22968261 TTATATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 3 0.07
19 13 0.29
20 29 0.64
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:22968285 original size:26 final size:24
Alignment explanation
Indices: 22968239--22968288 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22968229 AAAATTCAAA
*
22968239 ATATTTATAAAAAAATCAAAATTT
1 ATATTTATAAAAAAATAAAAATTT
*
22968263 ATATTTTTAAAAAATTATAAAAATTT
1 ATATTTATAAAAAA--ATAAAAATTT
22968289 CAAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
26 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATTTATAAAAAAATAAAAATTT
Found at i:22969257 original size:3 final size:3
Alignment explanation
Indices: 22969251--22969568 Score: 220
Period size: 3 Copynumber: 106.7 Consensus size: 3
22969241 AAGAATGATG
* *
22969251 ATA ATA ATA AT- ATA ATA ATA ATG ATA ATA A-A ATA ACTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* *
22969295 ATA GTA ATA GAAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
22969341 GTA GTA GTG GTG GTA AAA ATA ATA ATA ATG ATA GTA ATA ATA ATA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
22969389 ATA ATA AT- ATG TTAA ATA ATA ATA GTA ATA ATA ATTA CTA AAA ATG
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * * * *
22969435 ATA ATA GTA ATA A-A ATA A-A ATG ATA ATA ATA ATG TTA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
22969481 AAA ATA AAA ATA AAA ATA GTA ATA ATA ATA ATA TTG ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * *
22969527 GTA ATA GTA A-A ATA GTA A-A ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22969569 GATGATGATG
Statistics
Matches: 244, Mismatches: 57, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
2 15 0.06
3 218 0.89
4 11 0.05
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22969445 original size:22 final size:23
Alignment explanation
Indices: 22969389--22969467 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
22969379 AATAATAGAA
*
22969389 ATAATAAT-ATGTTAAATAATAAT-
1 ATAATAATAAT-TAAAATAA-AATG
**
22969412 AGTAATAATAATTACTA-AAAATG
1 A-TAATAATAATTAAAATAAAATG
*
22969435 ATAATAGTAA-TAAAATAAAATG
1 ATAATAATAATTAAAATAAAATG
22969457 ATAATAATAAT
1 ATAATAATAAT
22969468 GTTAATAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
21 3 0.07
22 26 0.59
23 4 0.09
24 9 0.20
25 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (23 bp):
ATAATAATAATTAAAATAAAATG
Found at i:22969573 original size:3 final size:3
Alignment explanation
Indices: 22969567--22969597 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22969557 AATAATAATA
22969567 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
22969598 ATATAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:22971230 original size:49 final size:49
Alignment explanation
Indices: 22971120--22971254 Score: 191
Period size: 49 Copynumber: 2.7 Consensus size: 49
22971110 GAGAAATAAG
*
22971120 ACTTGTAG-TTCCAATCTACTCCACTACAACTTCAAGGATATGAGATTTGTA
1 ACTTGTAGCTT-CAATCTACTCCACTACAACTTC-A-GAGATGAGATTTGTA
* *
22971171 ACTTTTAGCTTCAATCTGCTCCACTACAACTTCAGAGATGAGATTTGTA
1 ACTTGTAGCTTCAATCTACTCCACTACAACTTCAGAGATGAGATTTGTA
* *
22971220 ACTTGTAGCTTTAATCTACTCCACTGCAACTTCAG
1 ACTTGTAGCTTCAATCTACTCCACTACAACTTCAG
22971255 GGAGATAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 45 0.59
50 1 0.01
51 28 0.37
52 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (49 bp):
ACTTGTAGCTTCAATCTACTCCACTACAACTTCAGAGATGAGATTTGTA
Found at i:22971422 original size:86 final size:86
Alignment explanation
Indices: 22971281--22971439 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 86
22971271 ATCTTCAGTC
* *
22971281 TGCTCCTACTGCAATTTCAGGGAGATAAGACTCGCAACTTCAACCTGCTCTACTGCAACTTCAGG
1 TGCTCCTACTGCAACTTCAGAGAGATAAGACTCGCAACTTCAACCTGCTCTACTGCAACTTCAGG
22971346 GAGATAAGGTTTGTTATGATT
66 GAGATAAGGTTTGTTATGATT
* * ** *
22971367 TGCT-CTACTGTAACTTCAGAGAGATAAGA-TCTGTAATCTTCAGTCTGCTCTACTGCAACTTTA
1 TGCTCCTACTGCAACTTCAGAGAGATAAGACTC-GCAA-CTTCAACCTGCTCTACTGCAACTTCA
22971430 GGGAGATAAG
64 GGGAGATAAG
22971440 ACTTGTAACT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 2 0.03
85 25 0.39
86 37 0.58
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (86 bp):
TGCTCCTACTGCAACTTCAGAGAGATAAGACTCGCAACTTCAACCTGCTCTACTGCAACTTCAGG
GAGATAAGGTTTGTTATGATT
Found at i:22971456 original size:130 final size:131
Alignment explanation
Indices: 22971231--22971569 Score: 420
Period size: 130 Copynumber: 2.6 Consensus size: 131
22971221 CTTGTAGCTT
* *
22971231 TAATCTACTCC-ACTGCAACTTCAGGGAGATAAGATCCGCT-ATCTTCAGTCTGCTCCTACTGCA
1 TAATCTGCTCCTACTGCAACTTCAGGGAGATAAGATCTG-TAATCTTCAGTCTGCT-CTACTGCA
* *
22971294 A-TTTCAGGGAGATAAGACTCGCAACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTT
64 ACTTT-AGGGAGATAAGACTCGCAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAAGGTTT
22971358 GTTA
128 GTTA
* * * *
22971362 TGATTTGCT-CTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTCAGTCTGCTCTACTGCAAC
1 TAATCTGCTCCTACTGCAACTTCAGGGAGATAAGATCTGTAATCTTCAGTCTGCTCTACTGCAAC
* * * *
22971426 TTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTACAATTTTAGAGAGATAAGGTTTGTT
66 TTTAGGGAGATAAGACTCGCAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAAGGTTTGTT
22971491 A
131 A
* * ** * *
22971492 TAATCTGCTCCTACTGCAACTTCAGGGATATAAGA-CTCGCAA-CTTCAACCTACTCTACTACAA
1 TAATCTGCTCCTACTGCAACTTCAGGGAGATAAGATCT-GTAATCTTCAGTCTGCTCTACTGCAA
* *
22971555 CTTCAAGGAGATAAG
65 CTTTAGGGAGATAAG
22971570 GTTTGTTATG
Statistics
Matches: 179, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
130 107 0.60
131 72 0.40
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (131 bp):
TAATCTGCTCCTACTGCAACTTCAGGGAGATAAGATCTGTAATCTTCAGTCTGCTCTACTGCAAC
TTTAGGGAGATAAGACTCGCAACTTCAACCTGCTCTACTACAACTTCAGAGAGATAAGGTTTGTT
A
Found at i:22971506 original size:86 final size:85
Alignment explanation
Indices: 22971410--22971611 Score: 271
Period size: 86 Copynumber: 2.4 Consensus size: 85
22971400 TAATCTTCAG
* * * * **
22971410 TCTGCTCTACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTACAA-TTTTA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCAA
22971474 GAGAGATAAGGTTTGTTATAA
66 G-GAGATAAGGTTTGTTATAA
*
22971495 TCTGCTCCTACTGCAACTTCAGGGATATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCA
1 TCTGCT-CTACTGCAACTTCAGGGAGATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCA
*
22971560 AGGAGATAAGGTTTGTTATGA
65 AGGAGATAAGGTTTGTTATAA
* * * *
22971581 TTTACTCTACTGTAACTTCAGAGAGATAAGA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA
22971612 TCTGTAATCT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
85 28 0.27
86 70 0.69
87 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (85 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCAA
GGAGATAAGGTTTGTTATAA
Found at i:22971634 original size:86 final size:84
Alignment explanation
Indices: 22971414--22971655 Score: 270
Period size: 86 Copynumber: 2.8 Consensus size: 84
22971404 CTTCAGTCTG
* **
22971414 CTCTACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTACAA-TTTTAGAGA
1 CTCTACTGCAACTTCAGGGAGATAAGAC-TGTAACTTCAACCTGCTCTACTACAACTTCAAG-GA
*
22971478 GATAAGGTTTGTTATAATCTG
64 GATAAGGTTTGTTATAATCTA
* * *
22971499 CTCCTACTGCAACTTCAGGGATATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCAAGGA
1 CT-CTACTGCAACTTCAGGGAGATAAGACT-GTAACTTCAACCTGCTCTACTACAACTTCAAGGA
* *
22971564 GATAAGGTTTGTTATGATTTA
64 GATAAGGTTTGTTATAATCTA
* * * ** * * *
22971585 CTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTTAGTCTGCTCTATTGCAACTTCAGGGA
1 CTCTACTGCAACTTCAGGGAGATAAGA-CTGTAA-CTTCAACCTGCTCTACTACAACTTCAAGGA
22971650 GATAAG
64 GATAAG
22971656 ACTTATAACT
Statistics
Matches: 132, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
85 28 0.21
86 100 0.76
87 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (84 bp):
CTCTACTGCAACTTCAGGGAGATAAGACTGTAACTTCAACCTGCTCTACTACAACTTCAAGGAGA
TAAGGTTTGTTATAATCTA
Found at i:22971653 original size:216 final size:216
Alignment explanation
Indices: 22971279--22971741 Score: 766
Period size: 216 Copynumber: 2.1 Consensus size: 216
22971269 CTATCTTCAG
* * *
22971279 TCTGCTCCTACTGCAATTTCAGGGAGATAAGACTCGCAACTTCAACCTGCTCTACTGCAACTTCA
1 TCTGCTCCTACTGCAACTTCAGGGAGATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCA
* *
22971344 GGGAGATAAGGTTTGTTATGATTTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTCA
66 AGGAGATAAGGTTTGTTATGATTTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTCA
* * *
22971409 GTCTGCTCTACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTACAATTTTA
131 GTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTACAATTTCA
22971474 GAGAGATAAGGTTTGTTATAA
196 GAGAGATAAGGTTTGTTATAA
*
22971495 TCTGCTCCTACTGCAACTTCAGGGATATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCA
1 TCTGCTCCTACTGCAACTTCAGGGAGATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCA
*
22971560 AGGAGATAAGGTTTGTTATGATTTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTTA
66 AGGAGATAAGGTTTGTTATGATTTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTCA
* *
22971625 GTCTGCTCTATTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTGCAATTTCA
131 GTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTACAATTTCA
*
22971690 GAGAGATAAGGTTTGTTATGA
196 GAGAGATAAGGTTTGTTATAA
** * *
22971711 TCTGCT-CTGTTGTAACTTCAGAGAGATAAGA
1 TCTGCTCCTACTGCAACTTCAGGGAGATAAGA
22971742 TTTGTAACTT
Statistics
Matches: 229, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
215 20 0.09
216 209 0.91
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (216 bp):
TCTGCTCCTACTGCAACTTCAGGGAGATAAGACTCGCAACTTCAACCTACTCTACTACAACTTCA
AGGAGATAAGGTTTGTTATGATTTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTCA
GTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTACAATTTCA
GAGAGATAAGGTTTGTTATAA
Found at i:22971819 original size:44 final size:44
Alignment explanation
Indices: 22971179--22971970 Score: 410
Period size: 44 Copynumber: 17.8 Consensus size: 44
22971169 TAACTTTTAG
* * ** *
22971179 CTTCAATCTGCTCCACTACAACTTCAGAGATGAGATTTGTAACTTGTAG
1 CTTCAATCTGCTCTACTGCAACTTCAG-G--GAGATAAG--ACTTGTAT
* * * *
22971228 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TCCGCTAT
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACT-TG-TAT
* * * * *
22971273 CTTCAGTCTGCTCCTACTGCAATTTCAGGGAGATAAGACTCGCAA
1 CTTCAATCTGCT-CTACTGCAACTTCAGGGAGATAAGACTTGTAT
* **
22971318 CTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGT-T
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * *
22971361 -AT-GATTTGCTCTACTGTAACTTCAGAGAGATAAGA-TCTGTAAT
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACT-TGT-AT
* * *
22971404 CTTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * * **
22971448 CTTCAACCTGCTCTACTACAATTTTAGAGAGATAAGGTTTGT-T
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * *
22971491 -AT-AATCTGCTCCTACTGCAACTTCAGGGATATAAGACTCGCAA
1 CTTCAATCTGCT-CTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * **
22971534 CTTCAACCTACTCTACTACAACTTCAAGGAGATAAGGTTTGT-T
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * * *
22971577 -AT-GATTTACTCTACTGTAACTTCAGAGAGATAAGA-TCTGTAAT
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACT-TGT-AT
* * * * *
22971620 CTTTAGTCTGCTCTATTGCAACTTCAGGGAGATAAGACTTATAA
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * **
22971664 CTTCAACCTGCTCTACTGCAATTTCAGAGAGATAAGGTTTGT-T
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * ** * * *
22971707 -AT-GATCTGCTCTGTTGTAACTTCAGAGAGATAAGATTTGTAACTTAT
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTG-----TAT
* * *
22971754 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGTGT
1 --CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * * **
22971800 CTTCAACCTGCTCCACTGCAACTTCAAGGAAAGAAGGTTTGCTAT
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTG-TAT
* * ** ** **
22971845 CTTCGATCTACTCCGCTGCAACTTCAGGGCTATAAGATCTACTAT
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGA-CTTGTAT
* * * ** ***
22971890 CTTCAGTCTGCTCCACTGCAACATT-AGAGAGATAAGGTTTGCGG
1 CTTCAATCTGCTCTACTGCAAC-TTCAGGGAGATAAGACTTGTAT
* * *
22971934 CTTTAATCTGCTCCACTGCAACTTCGGGGAGATAAGA
1 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGA
22971971 TTCGCAATGA
Statistics
Matches: 555, Mismatches: 154, Indels: 73
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.00
41 95 0.17
42 25 0.05
43 5 0.01
44 187 0.34
45 145 0.26
46 39 0.07
47 2 0.00
48 1 0.00
49 24 0.04
50 1 0.00
51 29 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAT
Found at i:22971837 original size:136 final size:132
Alignment explanation
Indices: 22971493--22971840 Score: 425
Period size: 130 Copynumber: 2.6 Consensus size: 132
22971483 GGTTTGTTAT
* * * * *
22971493 AATCTGCTCCTACTGCAACTTCAGGGATATAAGACTCGCAACTTCAACCTACTCTACTACAACTT
1 AATCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTT
*
22971558 CAAGGAGATAAGGTTTGTTATGATTTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTT
65 CAAGGAGATAAGGTTTGTTATGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTT
22971623 TAG
130 TAG
* * * *
22971626 --TCTGCTCTATTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCTACTGCAATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTTC
* ** *
22971689 -AGAGAGATAAGGTTTGTTATGATCTGCTCTGTTGTAACTTCAGAGAGATAAGATTTGTAA-CTT
66 AAG-GAGATAAGGTTTGTTATGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTT
22971752 ATAG
130 -TAG
* ** *
22971756 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGTGTCTTCAACCTGCTCCACTGCAA
1 ----AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAA
* *
22971821 CTTCAAGGAAAGAAGGTTTG
62 CTTCAAGGAGATAAGGTTTG
22971841 CTATCTTCGA
Statistics
Matches: 182, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
129 5 0.03
130 102 0.56
131 7 0.04
136 66 0.36
137 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (132 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTTC
AAGGAGATAAGGTTTGTTATGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTT
AG
Found at i:22971958 original size:89 final size:89
Alignment explanation
Indices: 22971753--22971970 Score: 235
Period size: 89 Copynumber: 2.4 Consensus size: 89
22971743 TTGTAACTTA
* ** *
22971753 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGTGTCTTCAACCTGCTCCACTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTACTATCTTCAACCTGCTCCACTG
22971818 CAACTTCAAGGAAAGAAGGTTTGC
66 CAACTTCAAGGAAAGAAGGTTTGC
* * * * ** **
22971842 TATCTTCGATCTACTCCGCTGCAACTTCAGGGCTATAAGATCTACTATCTTCAGTCTGCTCCACT
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTACTATCTTCAACCTGCTCCACT
* *
22971907 GCAACATT--AGAGAGATAAGGTTTGC
65 GCAAC-TTCAAG-GAAAGAAGGTTTGC
* * *
22971932 -GGCTTTAATCTGCTCCACTGCAACTTCGGGGAGATAAGA
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
22971971 TTCGCAATGA
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
89 65 0.63
90 36 0.35
91 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (89 bp):
TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTACTATCTTCAACCTGCTCCACTG
CAACTTCAAGGAAAGAAGGTTTGC
Found at i:22976571 original size:81 final size:82
Alignment explanation
Indices: 22976431--22976648 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 82
22976421 GTTATGGAGG
* * * * * * *
22976431 TGAAGGAAAAATCCAAAGAACGAAAGATTCTATGAATAATTATTTACATGGTATGATTATGAATG
1 TGAA-GAAAAGTCCAAAGAACAAAAAAATCTAAGAATAATTATTTGCATGATATGATTATGAATG
22976496 -AAGAATAAAAGAATATT
65 AAAGAATAAAAGAATATT
*
22976513 TGAAGAAAAGTCCAAAGAACAAAATAATCTAAGAATAATTATTTGCATGATATGATTATGAATGA
1 TGAAGAAAAGTCCAAAGAACAAAAAAATCTAAGAATAATTATTTGCATGATATGATTATGAATG-
22976578 AAAATAAAAGAATAAAAGAATATT
65 ------AAAGAATAAAAGAATATT
** *
22976602 TGAAGGGAAGTCCAAAAAAACAAAAAAATCTAAGAATAATTATTTGC
1 TGAAGAAAAGTCC-AAAGAACAAAAAAATCTAAGAATAATTATTTGC
22976649 GTAGTGTAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
81 53 0.46
82 4 0.03
89 28 0.24
90 31 0.27
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (82 bp):
TGAAGAAAAGTCCAAAGAACAAAAAAATCTAAGAATAATTATTTGCATGATATGATTATGAATGA
AAGAATAAAAGAATATT
Found at i:22976666 original size:90 final size:89
Alignment explanation
Indices: 22976496--22976670 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 89
22976486 ATTATGAATG
* *
22976496 AAGAATAAAAGAATATTTGAAGAAAAGTCCAAAGAACAAAATAATCTAAGAATAATTATTTGCAT
1 AAGAATAAAAGAATATTTGAAGAAAAGTCCAAAAAACAAAAAAATCTAAGAATAATTATTTGCAT
* *
22976561 GATATGATTATGAATGAAAAATAA
66 GATATAATTACGAATGAAAAATAA
** *
22976585 AAGAATAAAAGAATATTTGAAGGGAAGTCCAAAAAAACAAAAAAATCTAAGAATAATTATTTGCG
1 AAGAATAAAAGAATATTTGAAGAAAAGTCC-AAAAAACAAAAAAATCTAAGAATAATTATTTGCA
*
22976650 T-AGTGTAATTACGAATGAAAA
65 TGA-TATAATTACGAATGAAAA
22976671 GAATGAAAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
89 29 0.38
90 47 0.62
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (89 bp):
AAGAATAAAAGAATATTTGAAGAAAAGTCCAAAAAACAAAAAAATCTAAGAATAATTATTTGCAT
GATATAATTACGAATGAAAAATAA
Found at i:22984032 original size:3 final size:3
Alignment explanation
Indices: 22984026--22984292 Score: 139
Period size: 3 Copynumber: 89.3 Consensus size: 3
22984016 AAGAATGATG
* *
22984026 ATA ATA ATA AT- ATA ATA ATA ATG ATA ATA A-A ATA ACTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * * * * * *
22984070 ATA GTA ATA GAAA ATA ATA ATA ATA ATA ATA ATA ATA GTA GTG GTG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * ** *
22984116 GTG GTA AAA ATA ATA ATA ATG ATA GTA ATA ATA ATA GCA ATA ATG AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
22984163 ATG TTAA ATA ATA ATA GTA ATA ATA ATTA CTA AAA ATG ATA ATA GTA
1 ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
22984210 GTA A-A ATA A-A ATG ATA ATA ATA ATA ATG TTA ATA GTA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
22984256 AAA ATA GTA ATA ATA GTA ATA ATA ATA TTG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22984293 ATAGTAATCG
Statistics
Matches: 199, Mismatches: 56, Indels: 18
0.73 0.21 0.07
Matches are distributed among these distances:
2 10 0.05
3 182 0.91
4 7 0.04
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22984316 original size:3 final size:3
Alignment explanation
Indices: 22984308--22984340 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22984298 AATCGTAAAT
22984308 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
22984341 ATATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:22995502 original size:9 final size:9
Alignment explanation
Indices: 22995488--22995533 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
22995478 TGATTATTAA
22995488 AATATATAT
1 AATATATAT
*
22995497 AATATATAA
1 AATATATAT
22995506 AATATATAT
1 AATATATAT
* *
22995515 AATATTTTT
1 AATATATAT
22995524 AA-ATATAT
1 AATATATAT
22995532 AA
1 AA
22995534 AAAATAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
8 6 0.19
9 25 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATATATAT
Found at i:22995508 original size:18 final size:18
Alignment explanation
Indices: 22995485--22995519 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22995475 AATTGATTAT
22995485 TAAAATATATATAATATA
1 TAAAATATATATAATATA
22995503 TAAAATATATATAATAT
1 TAAAATATATATAATAT
22995520 TTTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATATATATAATATA
Found at i:23005641 original size:24 final size:23
Alignment explanation
Indices: 23005609--23005654 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
23005599 CAAAACAAAG
*
23005609 AAAATTAAAAGTTTTAATATTTAT
1 AAAAATAAAAGTTTTAAT-TTTAT
*
23005633 AAAAATAAAATTTTTAATTTTA
1 AAAAATAAAAGTTTTAATTTTA
23005655 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAAAATAAAAGTTTTAATTTTAT
Found at i:23005643 original size:30 final size:30
Alignment explanation
Indices: 23005609--23005666 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
23005599 CAAAACAAAG
23005609 AAAA-TTAAAAGTTTTAATATTTATAAAAAT
1 AAAATTTAAAA-TTTTAATATTTATAAAAAT
** *
23005639 AAAATTTTTAATTTTAATATTTTTAAAA
1 AAAATTTAAAATTTTAATATTTATAAAA
23005667 TTAATGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
AAAATTTAAAATTTTAATATTTATAAAAAT
Found at i:23005670 original size:15 final size:15
Alignment explanation
Indices: 23005622--23005671 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
23005612 ATTAAAAGTT
*
23005622 TTAATATTTATAAAA
1 TTAATATTTTTAAAA
* * **
23005637 ATAAAATTTTTAATT
1 TTAATATTTTTAAAA
23005652 TTAATATTTTTAAAA
1 TTAATATTTTTAAAA
23005667 TTAAT
1 TTAAT
23005672 GTTAATTATT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATATTTTTAAAA
Found at i:23008979 original size:62 final size:62
Alignment explanation
Indices: 23008895--23009019 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
23008885 CTTACTATAA
*** *
23008895 ATATCAACAAATGTGATCTAAGAATGCGTAATAAATTTTTGTAATAATTTCTTTCTTAATTT
1 ATATCAACAAATGTGATCTAAGAATAAATAATAAAATTTTGTAATAATTTCTTTCTTAATTT
23008957 ATATCAACAAATGTGATCTAAGAATAAATAATAAAATTTTGTAATAATTTCTTTCTTAATTT
1 ATATCAACAAATGTGATCTAAGAATAAATAATAAAATTTTGTAATAATTTCTTTCTTAATTT
23009019 A
1 A
23009020 GTTTTTATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (62 bp):
ATATCAACAAATGTGATCTAAGAATAAATAATAAAATTTTGTAATAATTTCTTTCTTAATTT
Found at i:23012291 original size:11 final size:12
Alignment explanation
Indices: 23012277--23012305 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23012267 TATCTTCCGC
23012277 TTTTCTTTTCTT
1 TTTTCTTTTCTT
23012289 TTTTCTTTT-TT
1 TTTTCTTTTCTT
23012300 TTTTCT
1 TTTTCT
23012306 CTATTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:23013449 original size:42 final size:42
Alignment explanation
Indices: 23013402--23013485 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
23013392 GCCATTTCAA
23013402 AATATGTTTAGGTTATTTCCTTTCTAAGTACTAGATTTTAGG
1 AATATGTTTAGGTTATTTCCTTTCTAAGTACTAGATTTTAGG
*
23013444 AATATGTTTAGGTTATTTCCTTTCTAAGTACTAGGTTTTAGG
1 AATATGTTTAGGTTATTTCCTTTCTAAGTACTAGATTTTAGG
23013486 CTCATATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.48
Consensus pattern (42 bp):
AATATGTTTAGGTTATTTCCTTTCTAAGTACTAGATTTTAGG
Found at i:23026497 original size:48 final size:48
Alignment explanation
Indices: 23026431--23026564 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 48
23026421 CGAGATAATG
* * * *
23026431 GGAATCCAAGTGGCGGCTGGAGTCGAGAACAAAGGGATAGAGATTACA
1 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTACA
**
23026479 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTATG
1 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTACA
* * * * *
23026527 GGAATCCGAGCGGTCGCTGGGGCCAAGAGCAAAGGGAT
1 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGAT
23026565 CGGATGTCTT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.31, C:0.16, G:0.40, T:0.13
Consensus pattern (48 bp):
GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTACA
Found at i:23027294 original size:21 final size:21
Alignment explanation
Indices: 23027264--23027303 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23027254 TAACGGGACT
23027264 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
23027285 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
23027304 TTGCCACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:23027775 original size:18 final size:18
Alignment explanation
Indices: 23027749--23027803 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
23027739 ATTTAGGGTT
*
23027749 ATTTCGATTTTAATTTTG
1 ATTTTGATTTTAATTTTG
*
23027767 ATTTTGATTTCT-ATTTCG
1 ATTTTGATTT-TAATTTTG
* *
23027785 ATTTTGGTTTCAATTTTG
1 ATTTTGATTTTAATTTTG
23027803 A
1 A
23027804 AACACTCACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 29 0.97
19 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (18 bp):
ATTTTGATTTTAATTTTG
Found at i:23028027 original size:89 final size:89
Alignment explanation
Indices: 23027912--23028091 Score: 297
Period size: 89 Copynumber: 2.0 Consensus size: 89
23027902 TGCCATTGTA
* * * *
23027912 TGAATGCCAATATCAAATTGATGTTTGTTGTGTATATCTGCCATTGTTTGTATCCAAGCTGCTAT
1 TGAATGCCAATATCAAACTGATGTTTGCTCTGTATATCTGCCATTGTTTATATCCAAGCTGCTAT
*
23027977 ATTGTATGTGGCAAAATCAAAATT
66 ATTGTATGTAGCAAAATCAAAATT
* *
23028001 TGAATGTCATTATCAAACTGATGTTTGCTCTGTATATCTGCCATTGTTTATATCCAAGCTGCTAT
1 TGAATGCCAATATCAAACTGATGTTTGCTCTGTATATCTGCCATTGTTTATATCCAAGCTGCTAT
23028066 ATTGTATGTAGCAAAATCAAAATT
66 ATTGTATGTAGCAAAATCAAAATT
23028090 TG
1 TG
23028092 TTATTTACCT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (89 bp):
TGAATGCCAATATCAAACTGATGTTTGCTCTGTATATCTGCCATTGTTTATATCCAAGCTGCTAT
ATTGTATGTAGCAAAATCAAAATT
Found at i:23028384 original size:15 final size:15
Alignment explanation
Indices: 23028364--23028393 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23028354 GAAGAAGACA
23028364 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
23028379 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
23028394 CATCTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.40, T:0.40
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:23028399 original size:15 final size:15
Alignment explanation
Indices: 23028366--23028399 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23028356 AGAAGACATG
**
23028366 TCTGGTAGTGATGTG
1 TCTGGTAGTGATGCA
23028381 TCTGGTAGTGATGCA
1 TCTGGTAGTGATGCA
23028396 TCTG
1 TCTG
23028400 AAAATGATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (15 bp):
TCTGGTAGTGATGCA
Done.