Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2975
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: 121409
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1982 original size:29 final size:29
Alignment explanation
Indices: 1877--1982 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
1867 TGCCCCACTT
* *
1877 GGCCC-AATCTCATTTATATGGCCTATCA
1 GGCCCAAATCACATTTATATGGCCCATCA
* *
1905 GGCCTAAATCACATTCATATGGCCCATCA
1 GGCCCAAATCACATTTATATGGCCCATCA
*
1934 GGCCC-AATC-CATATTCATATGGCCCATTA
1 GGCCCAAATCACAT-TT-ATATGGCCCATCA
*
1963 GGCCCAAATCACCTTTATAT
1 GGCCCAAATCACATTTATAT
1983 TCATGCTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
27 3 0.05
28 9 0.14
29 45 0.69
30 6 0.09
31 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GGCCCAAATCACATTTATATGGCCCATCA
Found at i:5066 original size:39 final size:40
Alignment explanation
Indices: 5016--5107 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
5006 CGACTAAGAT
* *
5016 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTATA-ACCGGGATAAGTC
* *
5055 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGATATGTC
1 CCGAAGGCATTTGTGCGAGATACTATAACCGGGATAAGTC
5095 CCGAAGGCATTTG
1 CCGAAGGCATTTG
5108 AACGAGTAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
39 32 0.68
40 15 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTATAACCGGGATAAGTC
Found at i:7471 original size:40 final size:40
Alignment explanation
Indices: 7357--7571 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
7347 GAGAATTGAG
7357 AGTGATAT-TCCGGGCTAAG-CCCAGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCC-GAGGAGCATTCGTGCT
7396 AGTGATATATCC-GGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
7434 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
7474 AGTGATATATCC-GGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
7513 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
7553 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
7572 ACCTCGAAGA
Statistics
Matches: 165, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
38 28 0.17
39 63 0.38
40 74 0.45
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:7533 original size:79 final size:78
Alignment explanation
Indices: 7357--7571 Score: 353
Period size: 79 Copynumber: 2.7 Consensus size: 78
7347 GAGAATTGAG
7357 AGTGATAT-TCCGGGCTAAG-CCCAGAGGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCGA
1 AGTGATATATCCGGGCTAAGTCCC-GAGGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCGA
7420 GGAGCATTCGTGCT
65 GGAGCATTCGTGCT
7434 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGCTAAGT-CCGA
7499 GGAGCATTCGTGCT
65 GGAGCATTCGTGCT
* * * *
7513 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCG-GCTAA
7572 ACCTCGAAGA
Statistics
Matches: 130, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
77 8 0.06
78 47 0.36
79 70 0.54
80 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCGAG
GAGCATTCGTGCT
Found at i:11635 original size:40 final size:39
Alignment explanation
Indices: 11591--11695 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 39
11581 AGTGACCATA
* *
11591 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
11631 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
11669 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
11696 AACGAGTAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.04
39 31 0.54
40 24 0.42
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:11652 original size:39 final size:40
Alignment explanation
Indices: 11554--11695 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 40
11544 AATGATGTCT
* * *
11554 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* * *
11594 GGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
*
11634 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
11673 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
11696 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 33 0.38
40 43 0.50
41 9 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:11714 original size:79 final size:80
Alignment explanation
Indices: 11554--11701 Score: 176
Period size: 79 Copynumber: 1.9 Consensus size: 80
11544 AATGATGTCT
* **
11554 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAA
*
11619 TGAGATACTAATTCC
66 CGAGATACTAATTCC
* * * * *
11634 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTG
11696 AACGAG
64 AACGAG
11702 TAGCTATATC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.72
80 15 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAA
CGAGATACTAATTCC
Found at i:11989 original size:47 final size:47
Alignment explanation
Indices: 11920--12130 Score: 368
Period size: 47 Copynumber: 4.5 Consensus size: 47
11910 AAGGGTTGGT
11920 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
11967 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGGTGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12014 AATGTGAAAGTGTATATATGTGATAAGGCCTATTGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
12061 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
12108 AATGTTAAAGGGAATATATGTGA
1 AATGTGAAAGTGTATATATGTGA
12131 CAGGGTATAT
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 156 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:12128 original size:16 final size:16
Alignment explanation
Indices: 12109--12151 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
12099 AATGTGATGA
*
12109 ATGTTAAAGGGAATAT
1 ATGTGAAAGGGAATAT
* *
12125 ATGTGACAGGGTATAT
1 ATGTGAAAGGGAATAT
*
12141 ATGTGACAGGG
1 ATGTGAAAGGG
12152 CCGAGTGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (16 bp):
ATGTGAAAGGGAATAT
Found at i:12192 original size:63 final size:63
Alignment explanation
Indices: 12061--12193 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
12051 CGATGTGATG
* * * * *
12061 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTTAAAGGGAATA
1 AATGTGAAAGGGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGGGAATA
* * * * * * *
12124 TATGTGACAGGGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGGGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGGGAATA
12187 AATGTGA
1 AATGTGA
12194 TAAGTCCCGA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (63 bp):
AATGTGAAAGGGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGGGAATA
Found at i:16661 original size:17 final size:18
Alignment explanation
Indices: 16641--16675 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16631 TGAAAACCGT
16641 TCTTAA-AATAAAAAAAA
1 TCTTAATAATAAAAAAAA
*
16658 TCTTAATTATAAAAAAAA
1 TCTTAATAATAAAAAAAA
16676 ACTCCTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TCTTAATAATAAAAAAAA
Found at i:17729 original size:29 final size:29
Alignment explanation
Indices: 17660--17771 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
17650 ACTCCTACAT
* *
17660 ACATGCATATGGCCCA-CTTGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * * *
17688 TCATTTACATGGCCAATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
17717 ACATTCATATGGCCCATCATGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
17746 ATATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCATCAGGCCCAA
17772 ATTACCTTTA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 18 0.26
29 50 0.74
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:19201 original size:40 final size:40
Alignment explanation
Indices: 19157--19330 Score: 185
Period size: 40 Copynumber: 4.4 Consensus size: 40
19147 TCTTTTGTCA
*
19157 TTTGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCC
1 TTTGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCC
*
19197 TTTGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC
1 TTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCC
* * *
19237 TTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCC
1 TTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCC
* * * * * *
19276 -TTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCC
1 TTTGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCC
*
19316 TTCGGGACTTAGCCC
1 TTTGGGACTTAGCCC
19331 AGACATCATT
Statistics
Matches: 111, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.03
39 30 0.27
40 62 0.56
41 16 0.14
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTTGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCC
Found at i:19266 original size:39 final size:40
Alignment explanation
Indices: 19177--19280 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 40
19167 AGCCCGATTA
* *
19177 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
19217 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
19256 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
19281 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:19267 original size:79 final size:80
Alignment explanation
Indices: 19160--19330 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 80
19150 TTTGTCATTT
* * * *
19160 GGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCCGGATTTAGTAA
1 GGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCC-TTCGGATCTTAACCCGGATATAGTAA
*
19223 C-TCGCACAAATGCCTTC
64 CTTAGCACAAA-GCCTTC
* ** * *
19240 GGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACT
1 GGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACT
19304 TAGCACAAAGCCTTC
66 TAGCACAAAGCCTTC
19319 GGGACTTAGCCC
1 GGGACTTAGCCC
19331 AGACATCATT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.06
79 50 0.65
80 22 0.29
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
GGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACT
TAGCACAAAGCCTTC
Found at i:19746 original size:47 final size:47
Alignment explanation
Indices: 19668--19931 Score: 420
Period size: 47 Copynumber: 5.6 Consensus size: 47
19658 CCCTTCGGGA
* * * * * * *
19668 CTTATCACATTTATACATTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19715 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19762 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19809 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19905 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
19932 ACCAACCCTT
Statistics
Matches: 202, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 156 0.77
49 46 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19860 original size:96 final size:94
Alignment explanation
Indices: 19668--19931 Score: 420
Period size: 96 Copynumber: 2.8 Consensus size: 94
19658 CCCTTCGGGA
* * * * * * * * *
19668 CTTATCACATTTATACATTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
19733 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
19762 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC--ACATATATAC
19827 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
19858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
19923 TTTCACATT
66 TTTCACATT
19932 ACCAACCCTT
Statistics
Matches: 157, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
94 64 0.41
96 93 0.59
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:20273 original size:39 final size:40
Alignment explanation
Indices: 20156--20337 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
20146 GCTACTCGTT
*
20156 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
20196 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
20236 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
20275 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAG-TAAC-TCGCA
20316 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
20338 AGACATCATT
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 73 0.60
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20300 original size:79 final size:81
Alignment explanation
Indices: 20156--20337 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
20146 GCTACTCGTT
* * *
20156 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
* *
20221 AT-TTAGTAAC-TCGCA
66 ATATGA-TAACTTAGCA
* **
20236 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCC
*
20298 GGATATGATCACTTAGCA
64 GGATATGATAACTTAGCA
20316 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
20338 AGACATCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 6 0.07
79 50 0.57
80 32 0.36
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
ATATGATAACTTAGCA
Found at i:24746 original size:22 final size:22
Alignment explanation
Indices: 24721--24775 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
24711 TTGGTTGTGT
*
24721 GCCATAATCAGGTTGGCACAGA
1 GCCATAATCAGGTTGGCACAAA
*
24743 GCCAT-ATGTAGGTTGGCACAAA
1 GCCATAAT-CAGGTTGGCACAAA
24765 GCCATAATCAG
1 GCCATAATCAG
24776 AATGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
GCCATAATCAGGTTGGCACAAA
Found at i:24977 original size:41 final size:41
Alignment explanation
Indices: 24920--24998 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
24910 AAGCCACCGG
* * *
24920 TGGATCCACGGTCGTCAAGCAACCCTGCGATCCTTAATCGA
1 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAATCGA
24961 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAAT
1 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAAT
24999 TTCTTCCTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (41 bp):
TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAATCGA
Found at i:25326 original size:28 final size:27
Alignment explanation
Indices: 25258--25397 Score: 101
Period size: 27 Copynumber: 5.1 Consensus size: 27
25248 GGTAAATCTA
25258 CAAACCAAGGGTATTTC-GATAATTTTT
1 CAAACCAAGGGTATTTCTG-TAATTTTT
*
25285 CAAACCAATGGTATTTCTGTAATTTTT
1 CAAACCAAGGGTATTTCTGTAATTTTT
* ** *
25312 GGAAGTCAAGGGTATTTCTATAATTTTGT
1 -CAAACCAAGGGTATTTCTGTAATTTT-T
* *
25341 -AAAGC-AGAGGTATTTTTGTAA-TTTT
1 CAAACCAAG-GGTATTTCTGTAATTTTT
** *
25366 CTAAATTAAGGGTATTT-TGGTAATTTTA
1 C-AAACCAAGGGTATTTCT-GTAATTTTT
25394 CAAA
1 CAAA
25398 TTGAGGGTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
25 1 0.01
26 6 0.07
27 55 0.60
28 28 0.31
29 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCTGTAATTTTT
Found at i:25383 original size:27 final size:27
Alignment explanation
Indices: 25319--25422 Score: 97
Period size: 27 Copynumber: 3.8 Consensus size: 27
25309 TTTGGAAGTC
* *
25319 AAGGGTATTTCTA-TAATTTTGTAAA-G
1 AAGGGTATTT-TAGTAATTTTCTAAATT
* *
25345 CAGAGGTATTTTTGTAATTTTCTAAATT
1 AAG-GGTATTTTAGTAATTTTCTAAATT
*
25373 AAGGGTATTTTGGTAATTTTAC-AAATT
1 AAGGGTATTTTAGTAATTTT-CTAAATT
*
25400 GAGGGTATTTTAGTAAATTTTCT
1 AAGGGTATTTTAGT-AATTTTCT
25423 TTATTATGGA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.05
27 52 0.81
28 9 0.14
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTCTAAATT
Found at i:26065 original size:29 final size:29
Alignment explanation
Indices: 25994--26110 Score: 139
Period size: 29 Copynumber: 4.1 Consensus size: 29
25984 ACCTATGCAT
* *
25994 ACATGCATATGGCCCACTTGGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
26022 TCATTCATATAGCCCA-TCAGGCCCAATTC
1 ACATTCATATGGCCCACT-AGGCCCAATTC
26051 ACATTCATATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* * * *
26080 ATATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAATTC
26109 AC
1 AC
26111 CTTTATATTC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 20 0.27
29 53 0.71
30 1 0.01
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:26105 original size:58 final size:57
Alignment explanation
Indices: 25994--26110 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 57
25984 ACCTATGCAT
* *
25994 ACATGCATATGGCCCACTTGGCCCAATCTCATTCATATAGCCCATCAGGCCCAATTC
1 ACATGCATATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATCAGGCCCAAATC
* *
26051 ACATTCATATGGCCCACTAGGCCCAAT-TCATATTCATAT-GACCCATTAGGCCCAAATC
1 ACATGCATATGGCCCACTAGGCCCAATCTC--ATTCATATAG-CCCATCAGGCCCAAATC
26109 AC
1 AC
26111 CTTTATATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
56 2 0.04
57 26 0.49
58 25 0.47
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (57 bp):
ACATGCATATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATCAGGCCCAAATC
Found at i:26368 original size:16 final size:16
Alignment explanation
Indices: 26329--26371 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
26319 ACTTTCTGCT
*
26329 TTTTGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
26345 TTTTGGCTTTTCGG-A
1 TTTTGGCTTTTCGGCA
26360 TTTTCGGCTTTT
1 TTTT-GGCTTTT
26372 GCCGATCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.07, C:0.16, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:29157 original size:38 final size:38
Alignment explanation
Indices: 29097--29214 Score: 166
Period size: 38 Copynumber: 3.1 Consensus size: 38
29087 ATATTTGATG
*
29097 TATATCCAGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* *
29134 TATATCCGGGTTTTATCACGCAGGCTTCGCGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* ** *
29172 TATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
29210 TATAT
1 TATAT
29215 TCGAGCTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 9 0.13
38 62 0.87
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:29244 original size:40 final size:38
Alignment explanation
Indices: 29110--29245 Score: 157
Period size: 38 Copynumber: 3.5 Consensus size: 38
29100 ATCCAGGTTT
* **
29110 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAA
* *
29148 ATCACGCAGGCTTCGCGCTGGTATTATA-TCTGGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTC-GGGTTAA
* *
29186 ATCCCGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCG-GGTTAA
* *
29225 AGTCCCGCAGGTTTTGTGCTG
1 A-TCCCGCAGGCTTCGTGCTG
29246 ATGACTGGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 57 0.69
39 8 0.10
40 17 0.20
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (38 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAA
Found at i:33133 original size:42 final size:42
Alignment explanation
Indices: 33074--33159 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
33064 GATTCAGGTT
*
33074 GGTATGATGTATAGCGGAAGACAGATCATAATCTTACTCGTG
1 GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
33116 GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
1 GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
33158 GG
1 GG
33160 ATTAAAGAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
Found at i:34217 original size:38 final size:38
Alignment explanation
Indices: 34155--34272 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
34145 ATATTTGATG
*
34155 TATATCTGGG-TTTATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTAGTAT
* * *
34192 TATATCCGGGTTTTATCTCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTAGTAT
** * *
34230 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTTGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTAGTAT
34268 TATAT
1 TATAT
34273 TCGAGCTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
37 9 0.13
38 61 0.87
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTAGTAT
Found at i:34302 original size:40 final size:38
Alignment explanation
Indices: 34168--34304 Score: 112
Period size: 38 Copynumber: 3.6 Consensus size: 38
34158 ATCTGGGTTT
* * * * **
34168 ATCCCGCAGGCTTCGTGCTAGTATTATATCCGGGTTTT
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
* * * * *
34206 ATCTCGTAGGCTTCGTGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
* * *
34244 ATCCCGCAGGCTTAGTGCTTGTATTATATTCGAGCTTAA
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCG-GCTTAA
* *
34283 AGTCCCGCAAGTTTTGTGCTGG
1 A-TCCCGCAAGCTTAGTGCTGG
34305 GGACTGGATT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 60 0.73
39 6 0.07
40 16 0.20
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (38 bp):
ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
Found at i:35264 original size:6 final size:6
Alignment explanation
Indices: 35253--35405 Score: 116
Period size: 6 Copynumber: 24.8 Consensus size: 6
35243 GATCAAAATG
* *
35253 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* ** * *
35302 AGAATC AGAATT AGTTTAC AGAATC AGAATC AGTATC TGGTAA-C AGAATC
1 AGAATC AGAATC AGAAT-C AGAATC AGAATC AGAATC -AG-AATC AGAATC
* * *
35352 AGAATC AGAA-C TAGAATC AAAATC AGTATC AGGTAA-C AGAATT AGAATC
1 AGAATC AGAATC -AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
35401 AGAAT
1 AGAAT
35406 GTGAATGCAA
Statistics
Matches: 115, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
5 6 0.05
6 94 0.82
7 12 0.10
8 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:35265 original size:18 final size:18
Alignment explanation
Indices: 35255--35405 Score: 67
Period size: 19 Copynumber: 7.8 Consensus size: 18
35245 TCAAAATGAG
*
35255 AATCAGAATCAGAATCAG
1 AATCAGAATCAGAATCAA
*
35273 AATCAG-GTGACAGAATCAA
1 AATCAGAAT--CAGAATCAA
35292 AATCAGAATCAGAATCAGA
1 AATCAGAATCAGAATCA-A
*
35311 ATTAGTTTACAGAATCAGAATCAG
1 A--A---T-CAGAATCAGAATCAA
* * *
35335 TATCTGGTAA-CAGAATCAG
1 AATC-AG-AATCAGAATCAA
35354 AATCAGAA-CTAGAATCAA
1 AATCAGAATC-AGAATCAA
* *
35372 AATCAGTATCAGGTAA-CAG
1 AATCAGAATCA-G-AATCAA
*
35391 AATTAGAATCAGAAT
1 AATCAGAATCAGAAT
35406 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 13, Indels: 34
0.69 0.09 0.23
Matches are distributed among these distances:
17 6 0.06
18 32 0.31
19 43 0.42
20 5 0.05
21 1 0.01
22 1 0.01
24 1 0.01
25 14 0.14
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (18 bp):
AATCAGAATCAGAATCAA
Found at i:35290 original size:31 final size:31
Alignment explanation
Indices: 35253--35370 Score: 125
Period size: 31 Copynumber: 3.8 Consensus size: 31
35243 GATCAAAATG
*
35253 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
35284 AGAATCAAAATCAGAATCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
** * *
35314 AGTTTACAGAATCAGAATCAGTATCTGGTAAC
1 AGAAT-CAGAATCAGAATCAGAATCAGGTAAC
35346 AGAATCAGAATCAGAA-CTAGAATCA
1 AGAATCAGAATCAGAATC-AGAATCA
35371 AAATCAGTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 57 0.83
32 4 0.06
33 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:35298 original size:37 final size:37
Alignment explanation
Indices: 35255--35334 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
35245 TCAAAATGAG
35255 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
* * * *
35292 AATCAGAATCAGAATCAGAATTAGTTTACAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
35329 AATCAG
1 AATCAG
35335 TATCTGGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
Found at i:35323 original size:25 final size:25
Alignment explanation
Indices: 35295--35405 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 25
35285 GAATCAAAAT
* *
35295 CAGAATCAGAATCAGAAT-TAGTTTA
1 CAGAATCAGAATCAGAATCT-GGTAA
*
35320 CAGAATCAGAATCAGTATCTGGTAA
1 CAGAATCAGAATCAGAATCTGGTAA
35345 CAGAATCAGAATCAGAA-C---T--
1 CAGAATCAGAATCAGAATCTGGTAA
* * *
35364 -AGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCTGGTAA
*
35388 CAGAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
35406 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
18 14 0.20
19 1 0.01
21 1 0.01
22 1 0.01
24 1 0.01
25 50 0.72
26 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCTGGTAA
Found at i:35368 original size:43 final size:43
Alignment explanation
Indices: 35321--35404 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
35311 ATTAGTTTAC
* *
35321 AGAATCAGAATCAGTATCTGGTAACAGAATCAGAATCAGAACT
1 AGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAACT
*
35364 AGAATCAAAATCAGTATCAGGTAACAGAATTAGAATCAGAA
1 AGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAA
35405 TGTGAATGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (43 bp):
AGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAACT
Found at i:35573 original size:27 final size:26
Alignment explanation
Indices: 35525--35576 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35515 GCGAGGCTGC
*
35525 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35551 CAGATATATGTGCCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35577 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35853 original size:27 final size:27
Alignment explanation
Indices: 35823--36069 Score: 305
Period size: 27 Copynumber: 9.1 Consensus size: 27
35813 GTAAAATAGA
* * * *
35823 AATTATACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
**
35850 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
35877 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
35904 ATTTCTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
**
35931 AATTCTACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
35958 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
35985 ATTTCTACCCTACAGGGGCATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
36012 ATTTCTACCCTACAAGGGTATTTCGGC
1 AATTCTACCCTACAGGGGTATTTCGGT
* * ***
36039 ATTTCTACCTTACAAAAGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
36066 AATT
1 AATT
36070 TTGTAAATCG
Statistics
Matches: 192, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:36138 original size:27 final size:27
Alignment explanation
Indices: 36108--36286 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
36098 TGTAAATCAT
* * *
36108 GGGTACTTTGGTAATTTTACAAGTCGA-
1 GGGTATTTTGGTAATTTTACAA-ACAAG
*** *** *
36135 GGGTATTTCAATAATTTTACAGGTAAA
1 GGGTATTTTGGTAATTTTACAAACAAG
**
36162 GGGTATTTCAGTAATTTTACAAATCAA-
1 GGGTATTTTGGTAATTTTACAAA-CAAG
36189 GGGTATTTTGGTAATTTTACAAACAAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
36216 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
36243 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACAAG
36270 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
36287 GGTAAACTAA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.03
27 124 0.95
28 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACAAG
Found at i:36165 original size:81 final size:81
Alignment explanation
Indices: 36080--36236 Score: 174
Period size: 81 Copynumber: 1.9 Consensus size: 81
36070 TTGTAAATCG
** * * *
36080 AGGGTAAAAC-GATAATTCTGTAAATCATGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTT
1 AGGGTAAAACAG-TAATTCTACAAATCAAGGGTACTTTGGTAATTTTACAA-ACAAGGGGTATTT
36143 CAATAATTTTACAGGTAA
64 CAATAATTTTACAGGTAA
*** * * **
36161 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTG
1 AGGGTAAAACAGTAATTCTACAAATCAAGGGTACTTTGGTAATTTTACAAACAAGGGGTATTTCA
36226 ATAATTTTACA
66 ATAATTTTACA
36237 AACTAGGGGT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTCTACAAATCAAGGGTACTTTGGTAATTTTACAAACAAGGGGTATTTCA
ATAATTTTACAGGTAA
Found at i:36247 original size:81 final size:81
Alignment explanation
Indices: 36101--36286 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 81
36091 ATAATTCTGT
* * * * **
36101 AAATCATGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTAAAGGGT
1 AAATCAAGGGTATTTTGGTAATTTTACAAGACAAGGGTATTTCAATAATTTTACAACTAAAGGGT
36166 ATTTCAGTAATTTTAC
66 ATTTCAGTAATTTTAC
** *
36182 AAATCAAGGGTATTTTGGTAATTTTACAA-ACAAGGGGTATTTTGATAATTTTACAAACT-AGGG
1 AAATCAAGGGTATTTTGGTAATTTTACAAGACAA-GGGTATTTCAATAATTTTAC-AACTAAAGG
*
36245 GTATTTTAGTAATTTTAC
64 GTATTTCAGTAATTTTAC
*
36263 AAA-CTAGGGGTATTTTGGTAATTT
1 AAATC-AAGGGTATTTTGGTAATTT
36287 GGTAAACTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.03
81 86 0.95
82 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
AAATCAAGGGTATTTTGGTAATTTTACAAGACAAGGGTATTTCAATAATTTTACAACTAAAGGGT
ATTTCAGTAATTTTAC
Found at i:38264 original size:18 final size:18
Alignment explanation
Indices: 38234--38364 Score: 72
Period size: 19 Copynumber: 7.1 Consensus size: 18
38224 AAGAAACATT
*
38234 ATCAAAA-CTAGAATCAAA
1 ATCAAAATC-AGAATCAGA
* *
38252 ATGAGAATCAGAATCAGA
1 ATCAAAATCAGAATCAGA
* *
38270 ATCAGAATCAG-GTGACAGA
1 ATCAAAATCAGAAT--CAGA
*
38289 ATCAAAATCAAAATCAGA
1 ATCAAAATCAGAATCAGA
* *
38307 ATCAGAATTAGTTAA-CAGA
1 ATCAAAATCAG--AATCAGA
* *
38326 ATCAGAATCAGTATCAGGTA
1 ATCAAAATCAGAATCA-G-A
*
38346 A-CAGAATCAGAATCAGA
1 ATCAAAATCAGAATCAGA
38363 AT
1 AT
38365 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
17 4 0.04
18 38 0.43
19 42 0.47
20 5 0.06
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (18 bp):
ATCAAAATCAGAATCAGA
Found at i:38266 original size:6 final size:6
Alignment explanation
Indices: 38243--38364 Score: 106
Period size: 6 Copynumber: 19.8 Consensus size: 6
38233 TATCAAAACT
* * *
38243 AGAATC AAAATG AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * *
38292 AAAATC AAAATC AGAATC AGAATT AGTTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AG--AATC AGAATC AGAATC AGAATC
38341 AGGTAA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
38365 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
5 5 0.05
6 78 0.82
7 8 0.08
8 4 0.04
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:38290 original size:19 final size:18
Alignment explanation
Indices: 38255--38364 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 18
38245 AATCAAAATG
38255 AGAATCAG-AATCAGAATC
1 AGAATCAGTAA-CAGAATC
*
38273 AGAATCAGGTGACAGAATC
1 AGAATCA-GTAACAGAATC
* *
38292 AAAATCA-AAATCAGAATC
1 AGAATCAGTAA-CAGAATC
*
38310 AGAATTAGTTAACAGAATC
1 AGAATCAG-TAACAGAATC
*
38329 AGAATCAGTATCAGGTAA-C
1 AGAATCAGTAACA-G-AATC
38348 AGAATCAG-AATCAGAAT
1 AGAATCAGTAA-CAGAAT
38365 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.04
18 25 0.34
19 40 0.55
20 5 0.07
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
AGAATCAGTAACAGAATC
Found at i:38292 original size:31 final size:31
Alignment explanation
Indices: 38255--38364 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
38245 AATCAAAATG
*
38255 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
38286 AGAATCAAAATCAAAATCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
*
38316 AGTTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 AG--AATCAGAATCAGAATCAGAATCAGGTAAC
38348 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
38365 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 5 0.08
31 52 0.80
32 5 0.08
33 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:38328 original size:25 final size:25
Alignment explanation
Indices: 38300--38364 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
38290 TCAAAATCAA
* *
38300 AATCAGAATCAGAATTAGTTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
38325 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
38350 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
38365 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.22
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:38342 original size:37 final size:37
Alignment explanation
Indices: 38255--38355 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
38245 AATCAAAATG
*
38255 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* * * *
38292 AAAATCAAAATCAGAATCAGAATTAGTTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
38329 AGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCA-G-AATCAGAATCAG
38356 AATCAGAATG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
37 42 0.79
38 9 0.17
39 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:38631 original size:27 final size:26
Alignment explanation
Indices: 38584--38634 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
38574 CGAGGCTACC
*
38584 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
38610 AGATATATGTGCCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
38635 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:38911 original size:27 final size:27
Alignment explanation
Indices: 38881--39127 Score: 212
Period size: 27 Copynumber: 9.2 Consensus size: 27
38871 GGTAAAATGG
* * *
38881 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
38908 TAATTCTACCCTACATGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
38935 TAATTCAACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
38962 TATTTTTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
38989 TAATTCTACCCTATAGGGGTATTT-TA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
39015 GTAATTCTACCCTACAGGGGTATTTC-A
1 -TAATTCTACCCTACAAGGGTATTTCGA
* * * * * *
39042 GTATTTTTACCCTACAGGGGCATTTTGG
1 -TAATTCTACCCTACAAGGGTATTTCGA
* *
39070 TATTTCTACCCTACAAGGG-ATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
39096 CATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
39123 TAATT
1 TAATT
39128 TTGTAAATCG
Statistics
Matches: 184, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.13
27 160 0.87
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:38939 original size:54 final size:54
Alignment explanation
Indices: 38880--39127 Score: 239
Period size: 54 Copynumber: 4.6 Consensus size: 54
38870 GGGTAAAATG
* * * * *
38880 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACATGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * * * * **
38934 ATAATTCAACCCTACAGGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * *
38988 GTAATTCTACCCTATAGGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAAGGGTATTTCA
* * * * * * *
39042 GTATTTTTACCCTACAGGGGCATTTTGGTATTTCTACCCTACAAGGG-ATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * * *
39095 GCATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GTAATTCTACCCTACAGGGGTATTTCGATAATT
39128 TTGTAAATCG
Statistics
Matches: 155, Mismatches: 37, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
53 32 0.21
54 123 0.79
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:39009 original size:81 final size:81
Alignment explanation
Indices: 38879--39129 Score: 315
Period size: 81 Copynumber: 3.1 Consensus size: 81
38869 GGGGTAAAAT
* * * * * * *
38879 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACATGGGTATTTCAATAATTCAAC
1 GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
38944 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * *
38960 GGTATTTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
39025 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * * * * *
39041 AGTATTTTTACCCTACAGGGGCATTTTGGTATTTCTACCCTACAAGGG-ATTTCGGCATTTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
*
39105 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
39121 GGTAATTTT
1 GGTAATTTT
39130 GTAAATCGAG
Statistics
Matches: 147, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 34 0.23
81 113 0.77
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:39141 original size:27 final size:27
Alignment explanation
Indices: 39111--39345 Score: 129
Period size: 27 Copynumber: 8.7 Consensus size: 27
39101 CTACCCTACA
*
39111 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
*** * * *
39138 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTCGGTAATTTTATAAATCG
*
39165 AGGGTACTTT-GGTAATTTTATAAGTCG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
** * **
39192 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * * *
39219 AGGGTATTTCAGCAATTTCACAAAT-T
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
39245 AGGGGTATTTTGTTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * *
39272 AGGGGTATTTTGGTAATTTTACAAA-CTA
1 A-GGGTATTTCGGTAATTTTATAAATC-G
* *
39300 AGGGTATTTTGGTAATTTTATAAA-CAA
1 AGGGTATTTCGGTAATTTTATAAATC-G
**
39327 AGGGTATTTTAGTAATTTT
1 AGGGTATTTCGGTAATTTT
39346 GTAGTATTTT
Statistics
Matches: 171, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 166 0.97
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:39278 original size:54 final size:54
Alignment explanation
Indices: 39219--39416 Score: 171
Period size: 54 Copynumber: 3.8 Consensus size: 54
39209 TTACAGGTCG
* * * * * *
39219 AGGGTATTTCAGCAATTTCACAAATTAGGGGTATTTTGTTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACAA
* * * *
39273 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACAA
** * * *
39327 AGGGTATTTTAGTAATTT-----TGT-A--GTATTTTGGTGATTTTATAAAC-C
1 AGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACAA
* * *
39372 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTT
39417 GGTAAACTAA
Statistics
Matches: 115, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
45 18 0.16
46 21 0.18
48 1 0.01
49 1 0.01
53 14 0.12
54 60 0.52
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACAA
Found at i:39377 original size:45 final size:46
Alignment explanation
Indices: 39303--39390 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
39293 CAAACTAAGG
39303 GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTGTA
1 GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTGTA
* *
39349 GTATTTTGGTGATTTTATAAAC-CAGGGTATTTTAGTAATTTT
1 GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTT
39391 ACAAACCAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 19 0.47
46 21 0.52
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.49
Consensus pattern (46 bp):
GTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTGTA
Found at i:39380 original size:26 final size:27
Alignment explanation
Indices: 39349--39416 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 27
39339 TAATTTTGTA
* *
39349 GTATTTTGGTGATTTTATAAACCA-GG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
39375 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
39402 GTATTTTGGTAATTT
1 GTATTTTGGTAATTT
39417 GGTAAACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:39381 original size:72 final size:73
Alignment explanation
Indices: 39276--39416 Score: 203
Period size: 72 Copynumber: 1.9 Consensus size: 73
39266 CAAACTAGGG
* *
39276 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTA
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACAAAGGGTATTTTAGTA
39341 ATTTTGTA
66 ATTTTGTA
* * * * * *
39349 GTATTTTGGTGATTTTATAAAC-CAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTA
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACAAAGGGTATTTTAGTA
39413 ATTT
66 ATTT
39417 GGTAAACTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 40 0.67
73 20 0.33
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (73 bp):
GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACAAAGGGTATTTTAGTA
ATTTTGTA
Found at i:43519 original size:46 final size:46
Alignment explanation
Indices: 43452--43542 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
43442 TTATAAGAAG
* *
43452 ATTCAGGTTGGTATGATGTATAGTGGAAGATAGATCATAATCTTAT
1 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTAT
43498 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTA
1 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTA
43543 CTCGTGGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (46 bp):
ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTAT
Found at i:44609 original size:38 final size:37
Alignment explanation
Indices: 44548--44698 Score: 149
Period size: 38 Copynumber: 3.9 Consensus size: 37
44538 ATATTTGATG
*
44548 TATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* *
44585 TATATCCAGGTTTTATCCCACAGGCTTCGCGCTGGTAT
1 TATATCC-GGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* ** * *
44623 TATATCTGGGTTAAATCCCGCAGTCTTAGTGCTGGTAT
1 TATATC-CGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* * * *
44661 TATATTCGAGTTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATATCCG-GTTT-TA-TCCCGCAGGCTTCGTGCTGGT
44699 GACTGGATTC
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
37 8 0.09
38 65 0.70
39 2 0.02
40 18 0.19
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (37 bp):
TATATCCGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:46468 original size:33 final size:34
Alignment explanation
Indices: 46401--46469 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
46391 TTGCGATATT
46401 AGTGTGGGCCTTAGCCCAATATAGTAACAGTATC
1 AGTGTGGGCCTTAGCCCAATATAGTAACAGTATC
* * *
46435 AGTGTGGGCTTTA-CCCCATTTCAGT-ACAGTATC
1 AGTGTGGGCCTTAGCCCAATAT-AGTAACAGTATC
46468 AG
1 AG
46470 AAATGCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (34 bp):
AGTGTGGGCCTTAGCCCAATATAGTAACAGTATC
Found at i:52653 original size:40 final size:40
Alignment explanation
Indices: 52590--52723 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
52580 CGGTTATTTG
*
52590 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
52630 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * *
52670 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
52710 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
52724 TGAGATATCG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:56287 original size:46 final size:46
Alignment explanation
Indices: 56220--56323 Score: 181
Period size: 46 Copynumber: 2.3 Consensus size: 46
56210 TTGTAATTCA
*
56220 TTTACCTCATATCCATCTCATACACGTTTCACATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
*
56266 TTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
*
56312 TTTACCACATAT
1 TTTACCTCATAT
56324 ATACACATTC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.36
Consensus pattern (46 bp):
TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
Found at i:56368 original size:47 final size:47
Alignment explanation
Indices: 56297--57098 Score: 1289
Period size: 47 Copynumber: 17.1 Consensus size: 47
56287 ACACATTTCG
* * * * ** * *
56297 CATTAGCCATTCGGCTTTACCACATATATACACATTCACGTTCATTA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56344 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
56391 CATTGGCCATTTGGCCTTATCATATATATGCATATTCACATACATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
56438 CATTGGCCATTCAGCCTTATCACAGATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
56485 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
56532 CATTGTCCATTCGGCCTTATCACATATATGCATATTAACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
56579 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56626 CATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56673 CATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56720 CATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
56767 CATTGGCCATTCGGCCTTATCACACATATGCAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
56814 CATTGGCCATTCAGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
56861 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
56908 CATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
56955 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTAATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
57002 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
57049 CATTGGCCATTCGTCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
57096 CAT
1 CAT
57099 AAAATCCTGA
Statistics
Matches: 709, Mismatches: 46, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 709 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:57001 original size:25 final size:24
Alignment explanation
Indices: 56783--57097 Score: 84
Period size: 24 Copynumber: 13.3 Consensus size: 24
56773 CCATTCGGCC
**
56783 TTATCACACATATGCAGGTTCACA
1 TTATCACACATATGCATATTCACA
* *
56807 -T-TCATCACAT-TGGC-CATTCAGCC
1 TTATCA-CACATAT-GCATATTCA-CA
*
56830 TTATCACACATATGCATGTTCACA
1 TTATCACACATATGCATATTCACA
* * *
56854 -T-TCATCACAT-TGGC-CATTCGGCC
1 TTATCA-CACATAT-GCATATTC-ACA
*
56877 TTATCACACATATGCATGTTCACA
1 TTATCACACATATGCATATTCACA
* *
56901 -T-TCATCACAT-TGGC-CATTCGACC
1 TTATCA-CACATAT-GCATATTC-ACA
*
56924 TTATCACACATATGCATGTTCACA
1 TTATCACACATATGCATATTCACA
* * *
56948 -T-TCATCACAT-TGGC-CATTCGGCC
1 TTATCA-CACATAT-GCATATTC-ACA
56971 TTATCACACATATGCATATTCACA
1 TTATCACACATATGCATATTCACA
* * *
56995 TTA--ATCACAT-TGGC-CATTCGGCC
1 TTATCA-CACATAT-GCATATTC-ACA
*
57018 TTATCACACATATGCATGTTCACA
1 TTATCACACATATGCATATTCACA
* * *
57042 -T-TCATCACAT-TGGC-CATTCGTCC
1 TTATCA-CACATAT-GCATATTC-ACA
*
57065 TTATCACATATATGCATATTCACA
1 TTATCACACATATGCATATTCACA
57089 TTCATCACA
1 TT-ATCACA
57098 TAAAATCCTG
Statistics
Matches: 206, Mismatches: 42, Indels: 85
0.62 0.13 0.26
Matches are distributed among these distances:
22 42 0.20
23 57 0.28
24 58 0.28
25 49 0.24
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (24 bp):
TTATCACACATATGCATATTCACA
Found at i:58643 original size:39 final size:40
Alignment explanation
Indices: 58526--58707 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
58516 GCTACTCGTT
*
58526 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
58566 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
58606 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
58645 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
58686 CAAA-GCCTTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
58708 AGACATCATT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 74 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58670 original size:79 final size:80
Alignment explanation
Indices: 58526--58707 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
58516 GCTACTCGTT
* * *
58526 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
* *
58591 ATTTAGTAAC-TCGCA
65 ATATAGTAACTTAGCA
* **
58606 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCG
* *
58669 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
*
58686 CAAA-GCCTTCAGGACTTAGCCC
1 CAAATGCCTTC-GGGCTTAGCCC
58708 AGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 6 0.07
79 49 0.56
80 32 0.37
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:62534 original size:40 final size:40
Alignment explanation
Indices: 62477--62706 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
62467 ATTTGAATAC
* * * *
62477 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
62517 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
62557 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
62597 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
62637 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
62677 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
62707 TTGTGGTTAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 173 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:70524 original size:27 final size:27
Alignment explanation
Indices: 70487--70690 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
70477 TAAATTGTAC
*
70487 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
70514 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
70541 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
70567 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
70595 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
70623 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
70649 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
70676 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
70691 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 25 0.16
27 106 0.69
28 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:76283 original size:22 final size:22
Alignment explanation
Indices: 76255--76319 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
76245 GCAAATATGT
*
76255 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
76277 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
76299 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
76320 AATGATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:76521 original size:41 final size:41
Alignment explanation
Indices: 76464--76542 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
76454 AAGCCACCGG
* * *
76464 TGGATCCACGATCGTCAAGCAACCTTGCGATCCTTAATCGA
1 TGGATCCAAGATCGTCAAACAACCATGCGATCCTTAATCGA
*
76505 TGGATCCAAGGTCGTCAAACAACCATGCGATCCTTAAT
1 TGGATCCAAGATCGTCAAACAACCATGCGATCCTTAAT
76543 TTCTTCCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
TGGATCCAAGATCGTCAAACAACCATGCGATCCTTAATCGA
Found at i:76870 original size:28 final size:27
Alignment explanation
Indices: 76802--76965 Score: 104
Period size: 27 Copynumber: 6.0 Consensus size: 27
76792 GGTAAATCTA
76802 CAAACCAAGGGTATTTC-GATAATTTTT
1 CAAACCAAGGGTATTTCTG-TAATTTTT
*
76829 CAAACCAATGGTATTTCTGTAATTTTT
1 CAAACCAAGGGTATTTCTGTAATTTTT
* ** *
76856 GGAAGTCAAGGGTATTTCTATAATTTTGT
1 -CAAACCAAGGGTATTTCTGTAATTTT-T
* *
76885 -AAA-GAAGAGGTATTTTTGTAA-TTTT
1 CAAACCAAG-GGTATTTCTGTAATTTTT
** *
76910 CTAAATTAAGGGTATTT-TGGTAATTTTA
1 C-AAACCAAGGGTATTTCT-GTAATTTTT
*** * *
76938 CAAATTGAGGGTATTTCAGTAAATTTT
1 CAAACCAAGGGTATTTCTGTAATTTTT
76965 C
1 C
76966 TTTATTATGG
Statistics
Matches: 111, Mismatches: 16, Indels: 20
0.76 0.11 0.14
Matches are distributed among these distances:
25 1 0.01
26 7 0.06
27 73 0.66
28 29 0.26
29 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCTGTAATTTTT
Found at i:77653 original size:29 final size:29
Alignment explanation
Indices: 77548--77645 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
77538 ACATGCATAT
* *
77548 GGCCCAA-TCTCATTCATAT-AGCCCATCA
1 GGCCCAATTCACATTCATATGA-CCCATTA
* *
77576 GGCCCAATTCACATTCATATGGCCCACTA
1 GGCCCAATTCACATTCATATGACCCATTA
*
77605 GGCCCAATTCATATTCATATGACCCATTA
1 GGCCCAATTCACATTCATATGACCCATTA
*
77634 GGCCCAAATCAC
1 GGCCCAATTCAC
77646 CTTTATATTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
28 7 0.12
29 52 0.88
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (29 bp):
GGCCCAATTCACATTCATATGACCCATTA
Found at i:77903 original size:16 final size:16
Alignment explanation
Indices: 77864--77906 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
77854 ACTTTCTGCT
*
77864 TTTTGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
77880 TTTTGGCTTTTCGG-A
1 TTTTGGCTTTTCGGCA
77895 TTTTCGGCTTTT
1 TTTT-GGCTTTT
77907 GCCGATCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.07, C:0.16, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:80692 original size:38 final size:38
Alignment explanation
Indices: 80632--80749 Score: 166
Period size: 38 Copynumber: 3.1 Consensus size: 38
80622 ATATTTGATG
*
80632 TATATCCAGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* *
80669 TATATCCGGGTTTTATCACGCAGGCTTCGCGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* ** *
80707 TATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
80745 TATAT
1 TATAT
80750 TCGAGCTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 9 0.13
38 62 0.87
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:80779 original size:40 final size:38
Alignment explanation
Indices: 80645--80780 Score: 157
Period size: 38 Copynumber: 3.5 Consensus size: 38
80635 ATCCAGGTTT
* **
80645 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAA
* *
80683 ATCACGCAGGCTTCGCGCTGGTATTATA-TCTGGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTC-GGGTTAA
* *
80721 ATCCCGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCG-GGTTAA
* *
80760 AGTCCCGCAGGTTTTGTGCTG
1 A-TCCCGCAGGCTTCGTGCTG
80781 ATGACTGGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 57 0.69
39 8 0.10
40 17 0.20
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (38 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAA
Found at i:84668 original size:42 final size:42
Alignment explanation
Indices: 84609--84694 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
84599 GATTCAGGTT
*
84609 GGTATGATGTATAGCGGAAGACAGATCATAATCTTACTCGTG
1 GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
*
84651 GGTATGATGTATAGCGGAATACAAATCATAATCTTACTCGTG
1 GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
84693 GG
1 GG
84695 ATTAAAGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GGTATGATGTATAGCGGAAGACAAATCATAATCTTACTCGTG
Found at i:85753 original size:38 final size:38
Alignment explanation
Indices: 85691--85808 Score: 175
Period size: 38 Copynumber: 3.1 Consensus size: 38
85681 ATATTTGATG
* *
85691 TATATCTGGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGTAGGCTTCGTGCTGGTAT
*
85728 TATATCCGGGTTTTATCTCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGTAGGCTTCGTGCTGGTAT
** *
85766 TATATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGTAGGCTTCGTGCTGGTAT
85804 TATAT
1 TATAT
85809 TCGAGCTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 9 0.12
38 64 0.88
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGTAGGCTTCGTGCTGGTAT
Found at i:85838 original size:40 final size:38
Alignment explanation
Indices: 85704--85841 Score: 123
Period size: 38 Copynumber: 3.6 Consensus size: 38
85694 ATCTGGGTTT
* * * **
85704 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
* * * * *
85742 ATCTCGTAGGCTTCGTGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
* * *
85780 ATCCCGTAGGCTTAGTGCTGGTATTATATTCGAGCTTAA
1 ATCCCGCAAGCTTAGTGCTGGTATTATATCCG-GCTTAA
* *
85819 AGTCCCGCAAGTTTTGTGCTGGT
1 A-TCCCGCAAGCTTAGTGCTGGT
85842 GACTGGATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 63 0.73
39 6 0.07
40 17 0.20
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (38 bp):
ATCCCGCAAGCTTAGTGCTGGTATTATATCCGGCTTAA
Found at i:86800 original size:6 final size:6
Alignment explanation
Indices: 86789--86947 Score: 108
Period size: 6 Copynumber: 25.8 Consensus size: 6
86779 GATCAAAATG
* * *
86789 AGAATC AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGGATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* ** * * *
86838 AGAATC AGAATC AGAATT AGTTTAC AGAATC AAAATC AGTATC TGGTAA-C
1 AGAATC AGAATC AGAATC AGAAT-C AGAATC AGAATC AGAATC -AG-AATC
* * * * *
86888 AGAATC AGAATC AGAACC ATAATC AAAATC AGTATC AGGTAA-C AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
86937 AGAATC AGAAT
1 AGAATC AGAAT
86948 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
5 5 0.04
6 98 0.84
7 11 0.09
8 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:86840 original size:37 final size:37
Alignment explanation
Indices: 86789--86876 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
86779 GATCAAAATG
*
86789 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
86826 AGGATCAAAATCAGAATCAGAATCAGAATTAGTTTAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
86863 AGAATCAAAATCAG
1 AGAATCAAAATCAG
86877 TATCTGGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:86865 original size:25 final size:25
Alignment explanation
Indices: 86837--86903 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
86827 GGATCAAAAT
* *
86837 CAGAATCAGAATCAGAAT-TAGTTTA
1 CAGAATCAGAATCAGAATCT-GGTAA
* *
86862 CAGAATCAAAATCAGTATCTGGTAA
1 CAGAATCAGAATCAGAATCTGGTAA
86887 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
86904 CCATAATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCTGGTAA
Found at i:86919 original size:43 final size:43
Alignment explanation
Indices: 86865--86946 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
86855 TAGTTTACAG
*
86865 AATCAAAATCAGTATCTGGTAACAGAATCAGAATCAGAACCAT
1 AATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAT
*
86908 AATCAAAATCAGTATCAGGTAACAGAATTAGAATCAGAA
1 AATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAA
86947 TGTGAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.21
Consensus pattern (43 bp):
AATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAT
Found at i:87114 original size:27 final size:26
Alignment explanation
Indices: 87066--87117 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
87056 GCGAGGCTAC
*
87066 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
87092 CAGATATATGTGCCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
87118 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:87393 original size:27 final size:27
Alignment explanation
Indices: 87363--87611 Score: 300
Period size: 27 Copynumber: 9.2 Consensus size: 27
87353 GGGTAAAATA
* * * *
87363 GTAATTATACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
87390 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
87417 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
87444 GTATTTTTACACTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
**
87471 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
87498 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
87525 GTATTTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
87552 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * ***
87579 GCATTTCTACCTTACAAAAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
87606 GTAATT
1 GTAATT
87612 TTGTAAATTG
Statistics
Matches: 192, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:87680 original size:27 final size:26
Alignment explanation
Indices: 87650--87991 Score: 324
Period size: 27 Copynumber: 12.7 Consensus size: 26
87640 TGTAAATCAT
* * *
87650 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
*** **
87677 GGGTATTTCAATAATTTTACAGGTCAA
1 GGGTATTTTGGTAATTTTACA-AACAA
** *
87704 GGGTATTTCAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
87731 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
* *
87758 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
87785 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAAC-AA
*
87812 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
87839 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
* **
87866 GGGTTTTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* * *
87893 TGGTATTTTGGTAATTTTACAAGCTAC
1 GGGTATTTTGGTAATTTTACAAAC-AA
* *
87920 GGGTATTTTGGTGATTTTTATAAACCAA
1 GGGTATTTTGGT-AATTTTACAAA-CAA
* *
87948 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AA
87975 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
87992 GGTAAACTAA
Statistics
Matches: 265, Mismatches: 40, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.02
27 238 0.90
28 22 0.08
29 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:87707 original size:81 final size:81
Alignment explanation
Indices: 87622--87778 Score: 174
Period size: 81 Copynumber: 1.9 Consensus size: 81
87612 TTGTAAATTG
** * *
87622 AGGGTAAAAC-GATAATTCTGTAAATCATGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTT
1 AGGGTAAAACAG-TAATTCTACAAATCAGGGGTACTTTGGTAATTTTACAA-ACGAGGGGTATTT
87685 CAATAATTTTACAGGTCA
64 CAATAATTTTACAGGTCA
*** * * * **
87703 AGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTAAAACAGTAATTCTACAAATCAGGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTCA
87768 ATAATTTTACA
66 ATAATTTTACA
87779 AACTAGGGGT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTCTACAAATCAGGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTCA
ATAATTTTACAGGTCA
Found at i:88000 original size:27 final size:27
Alignment explanation
Indices: 87704--87991 Score: 362
Period size: 27 Copynumber: 10.6 Consensus size: 27
87694 TACAGGTCAA
**
87704 GGGTATTTCAGTAATTTTACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
87731 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
87758 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
87785 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
87812 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
87839 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** * *
87866 GGGTTTTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
87893 TGGTATTTTGGTAATTTTACAAGCTAC
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
87920 GGGTATTTTGGTGATTTTTATAAACCAA
1 GGGTATTTTGGT-AATTTTACAAACTAG
*
87948 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
87975 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
87992 GGTAAACTAA
Statistics
Matches: 223, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
27 201 0.90
28 22 0.10
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:92425 original size:46 final size:46
Alignment explanation
Indices: 92358--92448 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
92348 TTATAAGAAG
* *
92358 ATTCAGGTTGGTATGATGTATAGTGGAAGATAGATCATAATCTTAT
1 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTAT
92404 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTA
1 ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTA
92449 CTCGTGGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (46 bp):
ATTCAGGTTGGTATGATGTATAGCGGAAGACAGATCATAATCTTAT
Found at i:93513 original size:38 final size:37
Alignment explanation
Indices: 93454--93604 Score: 167
Period size: 38 Copynumber: 3.9 Consensus size: 37
93444 ATATTTGATG
*
93454 TATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
*
93491 TATATCCAGGTTTTATCCCGCAGGCTTCGCGCTGGTAT
1 TATATCC-GGTTTTATCCCGCAGGCTTCGTGCTGGTAT
** * *
93529 TATATCCGGGTTAAATCCCGCAGTCTTAGTGCTGGTAT
1 TATATCC-GGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* * * *
93567 TATATTCGAGTTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATATCCG-GTTT-TA-TCCCGCAGGCTTCGTGCTGGT
93605 GACTGGATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
37 8 0.08
38 69 0.71
39 2 0.02
40 18 0.19
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (37 bp):
TATATCCGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:95345 original size:34 final size:33
Alignment explanation
Indices: 95307--95375 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
95297 TTGCGATATT
*
95307 AGTGTGGGCCTTAGCCCAATACAATAACAGTATC
1 AGTGTGGGCCTTACCCCAATACAAT-ACAGTATC
* * * *
95341 AGTGTGGGCTTTACCCCATTTCAGTACAGTATC
1 AGTGTGGGCCTTACCCCAATACAATACAGTATC
95374 AG
1 AG
95376 AAATGCCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (33 bp):
AGTGTGGGCCTTACCCCAATACAATACAGTATC
Found at i:95424 original size:23 final size:21
Alignment explanation
Indices: 95393--95437 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
95383 TACAGAGATC
*
95393 CTACCCATCCATCCTCTACACT
1 CTACCCATCCAGCC-CTACACT
*
95415 CTACTCCATCGAGCCCTACACT
1 CTAC-CCATCCAGCCCTACACT
95437 C
1 C
95438 CATGTGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.22, C:0.49, G:0.04, T:0.24
Consensus pattern (21 bp):
CTACCCATCCAGCCCTACACT
Found at i:99439 original size:417 final size:417
Alignment explanation
Indices: 98665--99913 Score: 2453
Period size: 417 Copynumber: 3.0 Consensus size: 417
98655 AAGAGATCTG
98665 ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
1 ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
*
98730 TACTTCAATTCATTCACTATGATTAATTTTTCAATCTATTCCATGTTGTTTGTGAAAGCCATGAG
66 TACTTCAATTCATTCACTATGATTAATTTTTCCATCTATTCCATGTTGTTTGTGAAAGCCATGAG
98795 GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
131 GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
98860 AAAATTGGTATTGCCCATTTATGAACACCTTTACCCCAACCCAGTCTAGACAGTGAGGTTGGAAG
196 AAAATTGGTATTGCCCATTTATGAACACCTTTACCCCAACCCAGTCTAGACAGTGAGGTTGGAAG
98925 ATAAGTAGTTCTTGCTGACTCGTTATGTTAATGGAAGATCGGAAGATCGTGCTAGGTAGTGACTA
261 ATAAGTAGTTCTTGCTGACTCGTTATGTTAATGGAAGATCGGAAGATCGTGCTAGGTAGTGACTA
98990 GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
326 GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
99055 TCGAGATTTGATTTACTCTACTCTTCT
391 TCGAGATTTGATTTACTCTACTCTTCT
99082 ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
1 ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
99147 TACTTCAATTCATTCACTATGATTAATTTTTCCATCTATTCCATGTTGTTTGTGAAAGCCATGAG
66 TACTTCAATTCATTCACTATGATTAATTTTTCCATCTATTCCATGTTGTTTGTGAAAGCCATGAG
99212 GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
131 GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
* *
99277 AAAATTGGTATTGCCTATTTATGAACACCTTTACCCTAACCCAGTCTAGACAGTGAGGTTGGAAG
196 AAAATTGGTATTGCCCATTTATGAACACCTTTACCCCAACCCAGTCTAGACAGTGAGGTTGGAAG
*
99342 ATAAGTAGTTCTTGCTGACTCGTTATGTTAATGGAAGATCGAAAGATCGTGCTAGGTAGTGACTA
261 ATAAGTAGTTCTTGCTGACTCGTTATGTTAATGGAAGATCGGAAGATCGTGCTAGGTAGTGACTA
99407 GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
326 GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
99472 TCGAGATTTGATTTACTCTACTCTTCT
391 TCGAGATTTGATTTACTCTACTCTTCT
99499 ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
1 ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
99564 TACTTCAATTCATTCACTATGATTAATTTTTCCATCTATTCCATGTTGTTTGTGAAAGCCATGAG
66 TACTTCAATTCATTCACTATGATTAATTTTTCCATCTATTCCATGTTGTTTGTGAAAGCCATGAG
99629 GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
131 GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
99694 AAAATTGGTATTGCCCATTTATGAACACCTTTACCCCAACCCAGTCTAGACAGTGAGGTTGGAAG
196 AAAATTGGTATTGCCCATTTATGAACACCTTTACCCCAACCCAGTCTAGACAGTGAGGTTGGAAG
*
99759 ATAAGTAGTTCTTGCTAACTCGTTATGTTAATGGAAGATCGGAAGATCGTGCTAGGTAGTGACTA
261 ATAAGTAGTTCTTGCTGACTCGTTATGTTAATGGAAGATCGGAAGATCGTGCTAGGTAGTGACTA
99824 GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
326 GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
99889 TCGAGATTTGATTTACTCTACTCTT
391 TCGAGATTTGATTTACTCTACTCTT
99914 TTATGTCTTA
Statistics
Matches: 824, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
417 824 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (417 bp):
ATTTGTGAAGAAGATCAACTTTTGTGGATTTGTGCTTATTATTAATATCAAATTCTTAAACTCTC
TACTTCAATTCATTCACTATGATTAATTTTTCCATCTATTCCATGTTGTTTGTGAAAGCCATGAG
GAACTAATCCCTCTCTAGGGGTTAGCTAGTGGATGTATGATCTATTAATTACTTTATTGGTAAGT
AAAATTGGTATTGCCCATTTATGAACACCTTTACCCCAACCCAGTCTAGACAGTGAGGTTGGAAG
ATAAGTAGTTCTTGCTGACTCGTTATGTTAATGGAAGATCGGAAGATCGTGCTAGGTAGTGACTA
GTTGATTAACAAGGAACCCAAAGTAATAGTTGATGGGATTACTGAAGTGAGCTAATCACCCTTAA
TCGAGATTTGATTTACTCTACTCTTCT
Found at i:102401 original size:40 final size:40
Alignment explanation
Indices: 102338--102471 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
102328 CGGTTATTTG
*
102338 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
102378 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * *
102418 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
102458 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
102472 TGAGATATCG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:106461 original size:46 final size:46
Alignment explanation
Indices: 106394--106497 Score: 181
Period size: 46 Copynumber: 2.3 Consensus size: 46
106384 TTGTAATTCA
*
106394 TTTACCTCATATCCATCTCATACACGTTTCACATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
*
106440 TTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
*
106486 TTTACCACATAT
1 TTTACCTCATAT
106498 ATACACATCC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.36
Consensus pattern (46 bp):
TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
Found at i:106542 original size:47 final size:47
Alignment explanation
Indices: 106471--107272 Score: 1379
Period size: 47 Copynumber: 17.1 Consensus size: 47
106461 ACACATTTCG
* * * * ** * * *
106471 CATTAGCCATTCGGCTTTACCACATATATACACATCCACGTTCATTA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
106518 CATTGGCCATTCTGCCATATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
106565 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
106612 CATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
106659 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
106706 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
106753 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
106800 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
106847 CATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
106894 CATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
106941 CATTGGCCACTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
106988 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
107035 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
107082 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
107129 CATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTAATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
107176 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
107223 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
107270 CAT
1 CAT
107273 AAAATCCTAA
Statistics
Matches: 729, Mismatches: 26, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 729 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:111066 original size:40 final size:40
Alignment explanation
Indices: 111023--111458 Score: 710
Period size: 40 Copynumber: 10.9 Consensus size: 40
111013 ACACATCATC
* * *
111023 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* * *
111063 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
111103 AGCACGTATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* * *
111143 TGCACAAATGCTCTTCGGAACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
111183 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
111223 AGCACGAATGCTCTTCGGGACTTAGCTCAGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
111263 AGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCATT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
111303 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
111343 AGCACGAATGCTCTTCGGAACTTGGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
111383 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
111423 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
111459 ATAACTCTCA
Statistics
Matches: 367, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 367 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:112936 original size:46 final size:46
Alignment explanation
Indices: 112869--112972 Score: 181
Period size: 46 Copynumber: 2.3 Consensus size: 46
112859 TTGTAATTCA
*
112869 TTTACCTCATATCCATCTCATACACGTTTCACATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
*
112915 TTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGC
1 TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
*
112961 TTTACCACATAT
1 TTTACCTCATAT
112973 ATACACATCC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.36
Consensus pattern (46 bp):
TTTACCTCATATCCATCTCATACACATTTCACATTAGCCATTCGGC
Found at i:113017 original size:47 final size:47
Alignment explanation
Indices: 112986--113788 Score: 1366
Period size: 47 Copynumber: 17.2 Consensus size: 47
112976 CACATCCACG
* * * *
112986 TTCATTACATTGGCCATTCTGCCTTATCACATATATGCATATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113033 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
113080 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113127 TTCATCACATTGGCCATTCGGCCTTTTCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113174 TTCTTCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
113221 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113268 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * * *
113315 TTCTTCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113362 TTAATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113409 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113456 TTCATCACATTGGCCATTCGGCCTTAT--CACATAT--ATG--CATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
113497 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
113544 TTCATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCGCA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
113591 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
113638 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
113685 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
113732 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
113779 TTCATTACAT
1 TTCATCACAT
113789 AAAATCCTAA
Statistics
Matches: 719, Mismatches: 31, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
41 30 0.04
43 10 0.01
45 9 0.01
47 670 0.93
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:113029 original size:25 final size:24
Alignment explanation
Indices: 113001--113775 Score: 126
Period size: 25 Copynumber: 33.2 Consensus size: 24
112991 TACATTGGCC
113001 ATTCTGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * *
113026 ATTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
113048 ATTCGGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113073 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
113095 ATTCGGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * *
113120 ATTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
* *
113142 ATTCGGCCTTTTCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * * *
113167 GTTCACATTCTTCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113189 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113214 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113236 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113261 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113283 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113308 ATTCACATTCTTCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
113330 ATTCGGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * *
113355 ATTCACTTTAATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113377 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113402 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
113424 ATTCGGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113449 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
113471 ATTCGGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* *
113496 ATT---C--ATCACAT-T-GGC-C
1 ATTCGCCTTATCACATATATGCAT
*
113512 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113537 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113559 ATTCGACCTTATCACACATATGCAT
1 ATTCG-CCTTATCACATATATGCAT
* * * *
113584 GTTCGCATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113606 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113631 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113653 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113678 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
*
113700 ATTCGGCCTTATCACACATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
* * * * *
113725 GTTCACATTCATCACAT-T-GGC-C
1 ATTCGCCTT-ATCACATATATGCAT
113747 ATTCGGCCTTATCACATATATGCAT
1 ATTC-GCCTTATCACATATATGCAT
113772 ATTC
1 ATTC
113776 ACATTCATTA
Statistics
Matches: 498, Mismatches: 168, Indels: 168
0.60 0.20 0.20
Matches are distributed among these distances:
16 3 0.01
17 2 0.00
18 1 0.00
19 7 0.01
20 1 0.00
21 1 0.00
22 148 0.30
23 92 0.18
24 92 0.18
25 151 0.30
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (24 bp):
ATTCGCCTTATCACATATATGCAT
Found at i:113230 original size:23 final size:23
Alignment explanation
Indices: 113203--113277 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
113193 GGCCTTATCA
113203 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
113226 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
113248 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
113273 CACAT
1 CACAT
113278 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:119238 original size:40 final size:41
Alignment explanation
Indices: 119082--119224 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 41
119072 AATGATGTCT
* * *
119082 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCC
*
119122 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
119162 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
119202 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
119225 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
39 1 0.01
40 79 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
Found at i:119578 original size:47 final size:47
Alignment explanation
Indices: 119447--119852 Score: 670
Period size: 47 Copynumber: 8.6 Consensus size: 47
119437 AAGGGTTGGT
* *
119447 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
119494 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
119543 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
119590 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
119637 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
119683 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
119732 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
119779 AATGTGAAAGTGTATATATGTGACAGGGCCGAATGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
119826 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
119853 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 20 0.06
47 228 0.67
48 26 0.08
49 65 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:119769 original size:189 final size:190
Alignment explanation
Indices: 119447--119852 Score: 715
Period size: 189 Copynumber: 2.1 Consensus size: 190
119437 AAGGGTTGGT
119447 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
119512 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
* * * *
119577 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
119637 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
119701 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
* *
119766 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAATGGCCAACGTGATG
131 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
119826 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
119853 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
189 169 0.82
190 37 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:120794 original size:18 final size:16
Alignment explanation
Indices: 120771--120805 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
120761 AAAATCACTA
120771 AAATAGTAGAATAGAATT
1 AAATAGT-GAATA-AATT
120789 AAATAGTGAATAAATT
1 AAATAGTGAATAAATT
120805 A
1 A
120806 TTTAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (16 bp):
AAATAGTGAATAAATT
Done.