Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 129 of 352
Found at i:41425307 original size:40 final size:40
Alignment explanation
Indices: 41425217--41425368 Score: 227
Period size: 40 Copynumber: 3.8 Consensus size: 40
41425207 GAGTTACTAA
41425217 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTA--GTGATGT
41425259 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
41425299 ATCCGGGCTAAGT--CGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
41425337 ATCCGTGCTAAATCCCGAAGAGCAATCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
41425369 GGTGCGTGTA
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
38 34 0.33
40 35 0.34
42 33 0.32
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:41428759 original size:46 final size:48
Alignment explanation
Indices: 41428665--41428774 Score: 172
Period size: 46 Copynumber: 2.3 Consensus size: 48
41428655 CTAAGCCGAA
41428665 TGAAAGTGTATATATGTTAATTAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTTAATTAAGGCCTAAT-GCCGATGTGATGAATG
*
41428714 TGAAAGTGTATATATAG-TGA-TAAGGCCTAAT-CCGATGTGATGAATG
1 TGAAAGTGTATATAT-GTTAATTAAGGCCTAATGCCGATGTGATGAATG
41428760 TGAAAGTGTATATAT
1 TGAAAGTGTATATAT
41428775 TGAAATAAGN
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
46 30 0.51
48 11 0.19
49 17 0.29
50 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (48 bp):
TGAAAGTGTATATATGTTAATTAAGGCCTAATGCCGATGTGATGAATG
Found at i:41711235 original size:40 final size:40
Alignment explanation
Indices: 41711180--41711383 Score: 281
Period size: 40 Copynumber: 5.1 Consensus size: 40
41711170 CGGATGATAA
*
41711180 CCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTATA-T
41711220 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
*
41711260 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATAT
* *
41711300 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATAT
* * *
41711340 CCGGGCTAAGTCCTGAAGGCATTTGAGCG-AGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTATAT
41711380 CCGG
1 CCGG
41711384 TTAAAGCCCG
Statistics
Matches: 150, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 144 0.96
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATAT
Found at i:41714112 original size:50 final size:51
Alignment explanation
Indices: 41714034--41714173 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 51
41714024 ATCGGCTACT
*
41714034 ACATGTGTAGTACTAAGTGCAGGTTACTACGTGTATCC-GATGGATAGG-TC
1 ACATGTGTAGTACTAAGTGCAGGATACTACGTGTA-CCAGATGGATAGGTTC
* * * *
41714084 ACATGTGTAGTACTAAGTACAGGATACTACGTGTACCAGATTGTTCGGTTC
1 ACATGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGGATAGGTTC
* *
41714135 -CATGTGTAGTACTAAGTGCAGG-TGACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGAT-ACTACGTGTACCAGA
41714174 GAGCTTCGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
49 3 0.04
50 74 0.94
51 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (51 bp):
ACATGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGGATAGGTTC
Found at i:41716637 original size:14 final size:15
Alignment explanation
Indices: 41716605--41716638 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
41716595 AAGAGTTGAA
41716605 AGAATGACTCCATAC
1 AGAATGACTCCATAC
*
41716620 AGAATGGCTCCA-AC
1 AGAATGACTCCATAC
41716634 AGAAT
1 AGAAT
41716639 TGAAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (15 bp):
AGAATGACTCCATAC
Found at i:41719114 original size:40 final size:40
Alignment explanation
Indices: 41719053--41719197 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
41719043 CATTTGAATG
* *
41719053 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* * *
41719093 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
41719133 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
41719173 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
41719198 ATTGTGCTTG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 91 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:41719216 original size:80 final size:80
Alignment explanation
Indices: 41719053--41719224 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 80
41719043 CATTTGAATG
* * * * * *
41719053 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCTGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
41719118 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
41719133 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
41719197 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
41719213 ATATCC-GGCTAA
1 ATATCCGGGCTAA
41719225 ATTCGAAGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 70 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:41727414 original size:40 final size:40
Alignment explanation
Indices: 41727175--41727400 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
41727165 TTGAATGATG
* * * * *
41727175 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
41727215 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41727255 TCCGGGTTAAGTCCCGAAGGCATTTGTTCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41727295 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
41727335 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41727376 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
41727401 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41730441 original size:27 final size:27
Alignment explanation
Indices: 41730403--41730456 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
41730393 CACTACAGAG
41730403 AAAGAATTTTTGGTTCTAATCTTTGCT
1 AAAGAATTTTTGGTTCTAATCTTTGCT
*
41730430 AAAGAATTTTTGGTTGTAATCTTTGCT
1 AAAGAATTTTTGGTTCTAATCTTTGCT
41730457 TTCAACAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (27 bp):
AAAGAATTTTTGGTTCTAATCTTTGCT
Found at i:41732423 original size:17 final size:17
Alignment explanation
Indices: 41732401--41732433 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
41732391 GTTAGTGCAC
41732401 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
41732418 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
41732434 AATTTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:41735552 original size:29 final size:29
Alignment explanation
Indices: 41735511--41735629 Score: 152
Period size: 29 Copynumber: 4.2 Consensus size: 29
41735501 ATGAGCATGA
*
41735511 ATAT-AATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
41735539 ATATAAATGTGATTTGGGCCTAATGGGCT
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
41735568 ATATAAATGTGATCTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
** * * *
41735597 ATACGAATTTGA-TTAGGCCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
41735625 ATATA
1 ATATA
41735630 CAGGTATTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.26
29 58 0.74
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:41739021 original size:29 final size:28
Alignment explanation
Indices: 41738957--41739082 Score: 127
Period size: 29 Copynumber: 4.5 Consensus size: 28
41738947 TACATACATG
41738957 CATATGGCCCA-CTAGG-CCAATCTCATT
1 CATATGGCCCATCTAGGCCCAAT-TCATT
*
41738984 TATATGGCCCATCT-GGCCCAATTCAGGTT
1 CATATGGCCCATCTAGGCCCAATTCA--TT
*
41739013 CATATGGCCCATC-AGACCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATT--CATT
41739042 CATATGGCCCAT-TAGGCCCAATCTCATT
1 CATATGGCCCATCTAGGCCCAAT-TCATT
* *
41739070 TATATGACCCATC
1 CATATGGCCCATC
41739083 CAGCCAAATC
Statistics
Matches: 83, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
27 15 0.18
28 21 0.25
29 44 0.53
30 1 0.01
31 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCTAGGCCCAATTCATT
Found at i:41739215 original size:19 final size:19
Alignment explanation
Indices: 41739169--41739206 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
41739159 ATGGGCCCAA
*
41739169 TAGCCC-TTCGGGCCCATT
1 TAGCCCATTCCGGCCCATT
41739187 TAGCCCATTCCGGCCCATT
1 TAGCCCATTCCGGCCCATT
41739206 T
1 T
41739207 TGTCTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.13, C:0.39, G:0.18, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCCGGCCCATT
Found at i:41746800 original size:28 final size:28
Alignment explanation
Indices: 41746769--41746892 Score: 92
Period size: 28 Copynumber: 4.4 Consensus size: 28
41746759 ACATACATGC
41746769 ATATAGCCCACTAGGCCCAATCTCATTT
1 ATATAGCCCACTAGGCCCAATCTCATTT
41746797 ATATAGCCCATCTA-GCCCAAT-TCATGTT
1 ATATAGCCCA-CTAGGCCCAATCTCAT-TT
* * * * *
41746825 GATTTGGCCCA-TCAGACCCAATTCACATTC
1 -ATATAGCCCACT-AGGCCCAA-TCTCATTT
* * *
41746855 ATATGGCCCATTAGCCCCAATCTCATTT
1 ATATAGCCCACTAGGCCCAATCTCATTT
* *
41746883 AAATTGCCCA
1 ATATAGCCCA
41746893 TCCGGCCAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.06
28 34 0.44
29 32 0.42
30 3 0.04
31 3 0.04
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.29
Consensus pattern (28 bp):
ATATAGCCCACTAGGCCCAATCTCATTT
Found at i:41746834 original size:29 final size:30
Alignment explanation
Indices: 41746768--41746880 Score: 94
Period size: 29 Copynumber: 3.9 Consensus size: 30
41746758 TACATACATG
* *
41746768 CATATAGCCCA-CTAGGCCCAATCTCAT-TT
1 CATATGGCCCATCTAGACCCAAT-TCATATT
* *
41746797 -ATATAGCCCATCTAG-CCCAATTCATGTT
1 CATATGGCCCATCTAGACCCAATTCATATT
* * *
41746825 GATTTGGCCCATC-AGACCCAATTCACATT
1 CATATGGCCCATCTAGACCCAATTCATATT
*
41746854 CATATGGCCCAT-TAGCCCCAATCTCAT
1 CATATGGCCCATCTAGACCCAAT-TCAT
41746881 TTAAATTGCC
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
27 4 0.06
28 20 0.29
29 43 0.61
30 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (30 bp):
CATATGGCCCATCTAGACCCAATTCATATT
Found at i:41747028 original size:19 final size:19
Alignment explanation
Indices: 41746983--41747019 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
41746973 TGGGCCCAAC
41746983 AGCCC-TTCGGGCCTATTT
1 AGCCCATTCGGGCCTATTT
41747001 AGCCCATTCGGGCCTATTT
1 AGCCCATTCGGGCCTATTT
41747020 GGCCTATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.32
Consensus pattern (19 bp):
AGCCCATTCGGGCCTATTT
Found at i:41748751 original size:43 final size:43
Alignment explanation
Indices: 41748684--41748844 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
41748674 AAGCTCGTAC
* *
41748684 AATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 AATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT-G
* *
41748728 -ATGCC-ACTGTCCCAGACAG-GGTCTGACACGAAATCAAATATG
1 AATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATG
*
41748770 AATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGT-T-
1 AATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AA-TATG
* * *
41748814 TATTCCAACATCCCAGACGTGGTCTTACACG
1 AATGCCAACGTCCCAGACGTGGTCTTACACG
41748845 ATAACACATA
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.04
43 55 0.56
44 35 0.36
45 3 0.03
46 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
AATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATG
Found at i:41750832 original size:27 final size:27
Alignment explanation
Indices: 41750802--41750859 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
41750792 TACTAAAATA
**
41750802 CCCTAAGTATG-AAAATTCCCATTATAC
1 CCCTAAG-ATGCAAAATAACCATTATAC
*
41750829 CCCT-AGGTGCAAAATAACCATTATAC
1 CCCTAAGATGCAAAATAACCATTATAC
41750855 CCCTA
1 CCCTA
41750860 GGGTTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 20 0.77
27 4 0.15
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (27 bp):
CCCTAAGATGCAAAATAACCATTATAC
Found at i:41751003 original size:27 final size:28
Alignment explanation
Indices: 41750965--41751078 Score: 135
Period size: 28 Copynumber: 4.2 Consensus size: 28
41750955 GAGGAAGCGT
41750965 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
41750992 TCTGGTGGCTCTCCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
41751020 TCTGGTGGCCCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * * *
41751048 TTTGGTGACTCAGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
41751074 TCTGG
1 TCTGG
41751079 CAACCATGCT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.05
27 33 0.45
28 36 0.49
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:41751069 original size:55 final size:54
Alignment explanation
Indices: 41750963--41751078 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
41750953 TGGAGGAAGC
* * *
41750963 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTCCCACAAATATCT
1 GTTCTGGTGGCCCTGCCACAAATATCTGATCTGGTGACTCACCCACAAATATCT
* * **
41751017 GTTTCTGGTGGCCCTGCCACAATTATCTGTATTTGGTGACTCAGTCAC-AATATCT
1 G-TTCTGGTGGCCCTGCCACAAATATCTG-ATCTGGTGACTCACCCACAAATATCT
41751072 GTTCTGG
1 GTTCTGG
41751079 CAACCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 7 0.13
55 33 0.62
56 13 0.25
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTTCTGGTGGCCCTGCCACAAATATCTGATCTGGTGACTCACCCACAAATATCT
Found at i:41761547 original size:39 final size:39
Alignment explanation
Indices: 41761458--41761599 Score: 239
Period size: 39 Copynumber: 3.6 Consensus size: 39
41761448 AGCCCAGTTA
* *
41761458 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
41761498 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
*
41761537 TAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
*
41761576 TAGTATCTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCG
41761600 AAAATCTTAG
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 73 0.74
40 26 0.26
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
Found at i:41763716 original size:14 final size:14
Alignment explanation
Indices: 41763690--41763727 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
41763680 AAAATTAAAG
*
41763690 CACAAA-AATTTCA
1 CACAAATAAATTCA
41763703 CACAAATAAATTCA
1 CACAAATAAATTCA
41763717 CACATAATAAA
1 CACA-AATAAA
41763728 CACATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
CACAAATAAATTCA
Found at i:41765615 original size:43 final size:42
Alignment explanation
Indices: 41765497--41765650 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
41765487 TCATACAATA
* *
41765497 CCAACATCCCAGACGTGGTCTTACATGTAATCAAATACTGATG
1 CCAACGTCCCAGACGTGGTCTTACAAGTAATCAAATAC-GATG
* * *
41765540 CC-ACTGTCCTAGACAG-GGTCTTACACGAAATCAAATACGATG
1 CCAAC-GTCCCAGAC-GTGGTCTTACAAGTAATCAAATACGATG
* *
41765582 CCAACGTCCCAGGCGTGGTCTTACAAGTGAATCATAAGT-CAATG
1 CCAACGTCCCAGACGTGGTCTTACAAGT-AATCA-AA-TACGATG
* *
41765626 CCAACGTCCTAGATGTGGTCTTACA
1 CCAACGTCCCAGACGTGGTCTTACA
41765651 CGATAACACA
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 36 0.39
44 29 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
CCAACGTCCCAGACGTGGTCTTACAAGTAATCAAATACGATG
Found at i:41765646 original size:86 final size:85
Alignment explanation
Indices: 41765497--41765653 Score: 196
Period size: 86 Copynumber: 1.8 Consensus size: 85
41765487 TCATACAATA
* *
41765497 CCAACATCCCAGACGTGGTCTTACATGTAATCAAATACTGATGCCACTGTCCTAGACAGGGTCTT
1 CCAACATCCCAGACGTGGTCTTACAAGTAATCAAATACTAATGCCACTGTCCTAGACAGGGTCTT
41765562 ACACGAAATCAAATACGATG
66 ACACGAAATCAAATACGATG
* * *
41765582 CCAACGTCCCAGGCGTGGTCTTACAAGTGAATCATAAGT-C-AATGCCAAC-GTCCTAGA-TGTG
1 CCAACATCCCAGACGTGGTCTTACAAGT-AATCA-AA-TACTAATGCC-ACTGTCCTAGACAG-G
41765643 GTCTTACACGA
61 GTCTTACACGA
41765654 TAACACATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
85 26 0.42
86 30 0.48
87 5 0.08
88 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
CCAACATCCCAGACGTGGTCTTACAAGTAATCAAATACTAATGCCACTGTCCTAGACAGGGTCTT
ACACGAAATCAAATACGATG
Found at i:41766771 original size:34 final size:33
Alignment explanation
Indices: 41766733--41766796 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
41766723 TAACAGTAAC
41766733 AGTCTGGGCCTGAGCCCATTTCAGTATCAGTGGT
1 AGTCTGGGCCTGAGCCCATTTCAGTA-CAGTGGT
*
41766767 AGTCTGGGCCTTAGCCCATTTCAGTACAGT
1 AGTCTGGGCCTGAGCCCATTTCAGTACAGT
41766797 ATGCAAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.30
Consensus pattern (33 bp):
AGTCTGGGCCTGAGCCCATTTCAGTACAGTGGT
Found at i:41770034 original size:27 final size:26
Alignment explanation
Indices: 41769964--41770075 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
41769954 GGAGGAAGCT
41769964 TTCTGGTGGCTATGCCACAATTATCTG
1 TTCTGGTGGCTATGCCACAA-TATCTG
*
41769991 TTTCTGGTGGCTATGCCACAAAAATCTG
1 -TTCTGGTGGCTATGCCAC-AATATCTG
*
41770019 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
** * *
41770045 TATCTGGTAACTCTGTCACAATATCTG
1 T-TCTGGTGGCTATGCCACAATATCTG
41770072 TTCT
1 TTCT
41770076 AGCAGCCATG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.14
27 40 0.53
28 23 0.30
29 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:41774023 original size:26 final size:26
Alignment explanation
Indices: 41773980--41774039 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
41773970 TTTACTAAAC
* * *
41773980 TACCCCCAAGTATGAAATTACCATTA
1 TACCCCTAAGTATAAAATGACCATTA
* **
41774006 TACCCCTAAGTGTAAAATGACTGTTA
1 TACCCCTAAGTATAAAATGACCATTA
41774032 TACCCCTA
1 TACCCCTA
41774040 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (26 bp):
TACCCCTAAGTATAAAATGACCATTA
Found at i:41774214 original size:27 final size:27
Alignment explanation
Indices: 41774142--41774232 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
41774132 ATGGAGGAAG
* *
41774142 TGTTCTAGTGGCTATGCCACAATTATC
1 TGTTCTGGTGGCTATGCCACAAATATC
41774169 TGTTTCTGGTGGCTATGCCACAAATATC
1 TG-TTCTGGTGGCTATGCCACAAATATC
* *
41774197 TGTTCTGGTGGCTCTGCCAC-AATATT
1 TGTTCTGGTGGCTATGCCACAAATATC
41774223 TGTATCTGGT
1 TGT-TCTGGT
41774233 AACTCTATCA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.14
27 25 0.43
28 25 0.43
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
TGTTCTGGTGGCTATGCCACAAATATC
Found at i:41774238 original size:27 final size:26
Alignment explanation
Indices: 41774142--41774257 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
41774132 ATGGAGGAAG
* *
41774142 TGTTCTAGTGGCTATGCCACAATTATC
1 TGTTCTGGTGGCTCTGCCACAA-TATC
*
41774169 TGTTTCTGGTGGCTATGCCACAAATATC
1 TG-TTCTGGTGGCTCTGCCAC-AATATC
*
41774197 TGTTCTGGTGGCTCTGCCACAATATT
1 TGTTCTGGTGGCTCTGCCACAATATC
** **
41774223 TGTATCTGGTAACTCTATCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
*
41774250 TATTCTGG
1 TGTTCTGG
41774258 CAGCAATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 13 0.17
27 39 0.51
28 23 0.30
29 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:41781826 original size:25 final size:25
Alignment explanation
Indices: 41781797--41781844 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41781787 TTATAATATG
* **
41781797 AAAATGACTATTTTGTCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
41781822 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
41781845 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:41782005 original size:25 final size:25
Alignment explanation
Indices: 41781977--41782036 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
41781967 GAGGAAGTGC
41781977 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCG
* * *
41782002 AAAAGGACTTTTGCCCCAGTTTATCG
1 AAAAGGGC-TATGCCCCAGTTTACCG
41782028 AAAAGGGCT
1 AAAAGGGCT
41782037 TTTGCCCTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCG
Found at i:41782018 original size:26 final size:26
Alignment explanation
Indices: 41781987--41782048 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
41781977 AAAAGGGCTA
41781987 TGCCCCAGTTTACCGAAAAGGACTTT
1 TGCCCCAGTTTACCGAAAAGGACTTT
* *
41782013 TGCCCCAGTTTATCGAAAAGGGCTTT
1 TGCCCCAGTTTACCGAAAAGGACTTT
*
41782039 TGCCCTAGTT
1 TGCCCCAGTT
41782049 ATTAAAAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (26 bp):
TGCCCCAGTTTACCGAAAAGGACTTT
Found at i:41782306 original size:31 final size:31
Alignment explanation
Indices: 41782268--41782350 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
41782258 TTGTTACAGT
41782268 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
41782299 AAAGGCTTCGGCCCAGCGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
41782330 AAAGGCTTCGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
41782351 ATTGAGATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 3 0.06
31 44 0.94
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:41788640 original size:79 final size:82
Alignment explanation
Indices: 41788529--41788713 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
41788519 GCTACTCGTT
* * *
41788529 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
41788592 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
41788609 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
41788672 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
41788689 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41788714 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:41788713 original size:40 final size:40
Alignment explanation
Indices: 41788510--41788713 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
41788500 CGGAATTTAA
** *
41788510 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
41788550 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
41788590 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41788629 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
41788669 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41788709 CCGGA
1 CCGGA
41788714 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41793164 original size:25 final size:25
Alignment explanation
Indices: 41793126--41793173 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
41793116 TTATAATATG
** *
41793126 AAAATGACTGTTTTGCCCATAGGTA
1 AAAATGACCATTTTACCCATAGGTA
*
41793151 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCATAGG
41793174 GTTTGATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCATAGGTA
Found at i:41793263 original size:18 final size:19
Alignment explanation
Indices: 41793226--41793263 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
41793216 GATTTGATTC
41793226 GATATGCACATGCTATGTAT
1 GATATGCACATGC-ATGTAT
41793246 GATATGCACATG-ATGTAT
1 GATATGCACATGCATGTAT
41793264 TCATTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (19 bp):
GATATGCACATGCATGTAT
Found at i:41793334 original size:25 final size:26
Alignment explanation
Indices: 41793306--41793365 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
41793296 GAGGAAGTGC
*
41793306 AAAAGGGCTATGCCCCAA-TTTATCG
1 AAAAGGGCTATGCCCCAAGTTTATCA
* * **
41793331 AAAAGGACTTTTTCCCAAGTTTATCA
1 AAAAGGGCTATGCCCCAAGTTTATCA
41793357 AAAAGGGCT
1 AAAAGGGCT
41793366 TTTGCCCTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTATGCCCCAAGTTTATCA
Found at i:41793379 original size:25 final size:26
Alignment explanation
Indices: 41793319--41793377 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
41793309 AGGGCTATGC
* *
41793319 CCCAA-TTTATCGAAAAGGACTTTTT
1 CCCAAGTTTATCAAAAAGGACTTTTG
*
41793344 CCCAAGTTTATCAAAAAGGGCTTTTG
1 CCCAAGTTTATCAAAAAGGACTTTTG
*
41793370 CCCTAGTT
1 CCCAAGTT
41793378 ATTAAAGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (26 bp):
CCCAAGTTTATCAAAAAGGACTTTTG
Found at i:41793673 original size:31 final size:31
Alignment explanation
Indices: 41793595--41793673 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
41793585 TATTGTTATA
** *
41793595 GTAAAGGCTTTGGCCCAGTGATATGAATAAT
1 GTAAAGGCTTTGGCCCAACGACATGAATAAT
* * *
41793626 GAAAAGGCATCGGCCCAACGACATGAATAAT
1 GTAAAGGCTTTGGCCCAACGACATGAATAAT
*
41793657 GTAAAGGCTTTAGCCCA
1 GTAAAGGCTTTGGCCCA
41793674 GTATATGCTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (31 bp):
GTAAAGGCTTTGGCCCAACGACATGAATAAT
Found at i:41799021 original size:40 final size:40
Alignment explanation
Indices: 41798966--41799190 Score: 296
Period size: 40 Copynumber: 5.6 Consensus size: 40
41798956 TATTCGGATG
* *
41798966 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
41799006 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
41799046 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
41799089 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
41799129 ATATCCGGGCTAAGACCCGAAGGCATGTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACT
*
41799169 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
41799191 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 18 0.11
40 109 0.66
41 2 0.01
43 34 0.20
44 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41799124 original size:83 final size:83
Alignment explanation
Indices: 41798966--41799164 Score: 289
Period size: 83 Copynumber: 2.4 Consensus size: 83
41798956 TATTCGGATG
* * *
41798966 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGC---TAGTGACCATATCTGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTGACCATACCCGGGCTAAGTCCCGAAG
41799028 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* *
41799046 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGA-TATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-TGACCATACCCGGGCTAAGTCCCGAA
41799110 GGCATTTGTGCTAGTGACT
65 GGCATTTGTGCTAGTGACT
* * *
41799129 ATATCCGGGCTAAGACCCGAAGGCATGTGTGTGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
41799165 TGCTATATCC
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 30 0.28
83 73 0.69
84 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTGACCATACCCGGGCTAAGTCCCGAAG
GCATTTGTGCTAGTGACT
Found at i:41799209 original size:83 final size:82
Alignment explanation
Indices: 41799012--41799190 Score: 238
Period size: 83 Copynumber: 2.2 Consensus size: 82
41799002 GACCATATCT
* * *
41799012 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTG
1 GGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCGAAGACCCGAAGGCA-TTGTG
41799077 CGAGTAGTTGATATACCC
65 CGAGTAGTTGATATACCC
* * * *
41799095 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA-TGTGT
1 GGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCGAAGACCCGAAGGCATTGTGC
* * *
41799159 GTG-AGTTGCTATATCC
66 GAGTAGTTGATATACCC
41799175 -GGCTAAATCCCGAAGG
1 GGGCTAAATCCCGAAGG
41799191 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 15 0.17
80 11 0.12
81 6 0.07
83 57 0.64
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (82 bp):
GGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCGAAGACCCGAAGGCATTGTGC
GAGTAGTTGATATACCC
Found at i:41803272 original size:30 final size:30
Alignment explanation
Indices: 41803227--41803286 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
41803217 ATTTATTACG
41803227 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
41803257 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
41803287 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:41804849 original size:12 final size:12
Alignment explanation
Indices: 41804834--41804897 Score: 76
Period size: 12 Copynumber: 5.3 Consensus size: 12
41804824 CAAAATTACA
41804834 AATTTAATTCAC
1 AATTTAATTCAC
* *
41804846 AATTTAATCCAT
1 AATTTAATTCAC
41804858 AATTTAATTCAC
1 AATTTAATTCAC
*
41804870 AATTTAA-TAAC
1 AATTTAATTCAC
*
41804881 ATATTTAATTCAA
1 A-ATTTAATTCAC
41804894 AATT
1 AATT
41804898 ACGAATATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 4 0.09
12 36 0.84
13 3 0.07
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTTAATTCAC
Found at i:41804861 original size:24 final size:25
Alignment explanation
Indices: 41804834--41804897 Score: 96
Period size: 24 Copynumber: 2.6 Consensus size: 25
41804824 CAAAATTACA
*
41804834 AATTTAATTCACAATTTAAT-CCAT
1 AATTTAATTCACAATTTAATAACAT
41804858 AATTTAATTCACAATTTAATAACAT
1 AATTTAATTCACAATTTAATAACAT
*
41804883 -ATTTAATTCAAAATT
1 AATTTAATTCACAATT
41804898 ACGAATATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 34 0.92
25 3 0.08
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTTAATTCACAATTTAATAACAT
Found at i:41815014 original size:39 final size:39
Alignment explanation
Indices: 41814970--41815207 Score: 404
Period size: 39 Copynumber: 6.1 Consensus size: 39
41814960 AATTATATTA
* * *
41814970 CCAGCACAAAGCCTGCGGAACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
41815009 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
41815048 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
41815087 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
41815126 CCAGCACGAAGCCTGCAGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
41815165 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
41815204 CCAG
1 CCAG
41815208 TGTCTTGCTT
Statistics
Matches: 189, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 189 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:41819686 original size:52 final size:52
Alignment explanation
Indices: 41819618--41819724 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 52
41819608 ATGGTAACAA
* *
41819618 CATCCAATCGGTTGGAAAACAATGACCTCTAACTATCAAAGGACATTTATTG
1 CATCAAATCGATTGGAAAACAATGACCTCTAACTATCAAAGGACATTTATTG
* *
41819670 CATCAAATCGATTGGAAAACACTGACCTCTAACTATCAAAGGACATTTCTTG
1 CATCAAATCGATTGGAAAACAATGACCTCTAACTATCAAAGGACATTTATTG
41819722 CAT
1 CAT
41819725 ACTTTATCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (52 bp):
CATCAAATCGATTGGAAAACAATGACCTCTAACTATCAAAGGACATTTATTG
Found at i:41832117 original size:50 final size:49
Alignment explanation
Indices: 41831992--41832176 Score: 219
Period size: 50 Copynumber: 3.7 Consensus size: 49
41831982 AGCTGAAGCT
* * * *
41831992 ATCTGATACGCATAGTAGCCTGCACTTAATACTACACATGCGA-TCAATA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTC-ATC
* * * *
41832041 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CTCATC
* * *
41832091 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACCCATGCGACTTAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCATC
* *
41832140 AGTATGATACACGTAGTAGCCTACACTTAGTACTACA
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACA
41832177 TGTGTATTCA
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 41 0.36
50 72 0.63
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCATC
Found at i:41835375 original size:20 final size:20
Alignment explanation
Indices: 41835350--41835436 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
41835340 GTTTTGATAT
*
41835350 ACATGAT-TGATATGATACGC
1 ACATGATATG-TATGATATGC
*
41835370 ACATGATATGTATAATATGC
1 ACATGATATGTATGATATGC
* *
41835390 ATATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
41835410 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
41835430 ACATGAT
1 ACATGAT
41835437 GTATTCATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41835403 original size:9 final size:9
Alignment explanation
Indices: 41835372--41835428 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
41835362 TGATACGCAC
41835372 ATGATATGT
1 ATGATATGT
*
41835381 ATAATATGCAT
1 ATGATATG--T
41835392 ATGATATGT
1 ATGATATGT
41835401 ATGATATGT
1 ATGATATGT
41835410 ACATGATATGT
1 --ATGATATGT
41835421 ATGATATG
1 ATGATATG
41835429 CACATGATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 25 0.60
11 17 0.40
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (9 bp):
ATGATATGT
Found at i:41835556 original size:25 final size:26
Alignment explanation
Indices: 41835484--41835578 Score: 90
Period size: 25 Copynumber: 3.8 Consensus size: 26
41835474 AGGAAGTGTA
41835484 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* * **
41835509 AAAAGGGCTTCTGCCCCAATTTA-TT
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* *
41835534 AAAAGGGCTTTTGCCACAGTTTAGCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* *
41835560 -AAATGG-ATTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
41835579 ATTAAAACAG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
24 11 0.20
25 32 0.57
26 13 0.23
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:41835835 original size:31 final size:31
Alignment explanation
Indices: 41835800--41835860 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
41835790 CGTTTACAGT
41835800 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
*
41835831 AAAGGCTTTGGCCTAGTGTTATGAAATATG
1 AAAGGCTTTGGCCCAGTGTTATGAAATATG
41835861 GAATATGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGTTATGAAATATGA
Found at i:41836648 original size:194 final size:194
Alignment explanation
Indices: 41836319--41836705 Score: 720
Period size: 194 Copynumber: 2.0 Consensus size: 194
41836309 AATTGCAACT
41836319 AATTTTTTTTTCAAAATTTAAACTCGTTATAACGAAGTGTGGCAATGGTTGTGGGAATGTCTAGG
1 AATTTTTTTTTCAAAATTTAAACTCGTTATAACGAAGTGTGGCAATGGTTGTGGGAATGTCTAGG
* * *
41836384 ATTGGATCCAATCAAAGAGCTTGGTACTTAAGCAGCCTTCATGGCTCACCTCCTCTGTCACGGAT
66 ATTGGATCCAATCAAAGAGCTTGGTACTTAACCAGCCTTCATGACTCACCTCCTCTGTCACAGAT
41836449 TCCTACCTGGTGCCCAGCTTCCGTTCACTTTGTTAGCTTAACAAAAGTTAGTTTTTAAACACTC
131 TCCTACCTGGTGCCCAGCTTCCGTTCACTTTGTTAGCTTAACAAAAGTTAGTTTTTAAACACTC
*
41836513 AATTTTTTTTTCAAAATTTAAACTCGTTATAACGAAGTGTGGCAATGGTTGTGGGCATGTCTAGG
1 AATTTTTTTTTCAAAATTTAAACTCGTTATAACGAAGTGTGGCAATGGTTGTGGGAATGTCTAGG
*
41836578 ATTGGATCCAATCGAAGAGCTTGGTACTTAACCAGCCTTCATGACTCACCTCCTCTGTCACAGAT
66 ATTGGATCCAATCAAAGAGCTTGGTACTTAACCAGCCTTCATGACTCACCTCCTCTGTCACAGAT
*
41836643 TCCTACTTGGTGCCCAGCTTCCGTTCACTTTGTTAGCTTAACAAAAGTTAGTTTTTAAACACT
131 TCCTACCTGGTGCCCAGCTTCCGTTCACTTTGTTAGCTTAACAAAAGTTAGTTTTTAAACACT
41836706 AAAACGAATC
Statistics
Matches: 187, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
194 187 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (194 bp):
AATTTTTTTTTCAAAATTTAAACTCGTTATAACGAAGTGTGGCAATGGTTGTGGGAATGTCTAGG
ATTGGATCCAATCAAAGAGCTTGGTACTTAACCAGCCTTCATGACTCACCTCCTCTGTCACAGAT
TCCTACCTGGTGCCCAGCTTCCGTTCACTTTGTTAGCTTAACAAAAGTTAGTTTTTAAACACTC
Found at i:41843562 original size:25 final size:25
Alignment explanation
Indices: 41843515--41843562 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
41843505 TTATATTATG
* * *
41843515 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
41843540 AAAATGACCATTATACCCGTAGG
1 AAAATGACCATTATACCCCTAGG
41843563 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41843725 original size:25 final size:24
Alignment explanation
Indices: 41843697--41843774 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
41843687 CACTTTACCG
41843697 AAAAGGGCTTTTGCCCTAATTTATT
1 AAAAGGGCTTTTGCCC-AATTTATT
* *
41843722 AAAAGGGCTTTTTCCCAAGTTTATG
1 AAAAGGGCTTTTGCCCAA-TTTATT
* * *
41843747 GAAAGGGC-TTTGCCCCAGTTATT
1 AAAAGGGCTTTTGCCCAATTTATT
41843770 AAAAG
1 AAAAG
41843775 AGGGTAGGTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 8 0.18
24 9 0.20
25 27 0.61
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCAATTTATT
Found at i:41844031 original size:31 final size:31
Alignment explanation
Indices: 41843988--41844051 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41843978 CGTTTACAGT
41843988 AAAGGCTTCGGCCAAATGTTATGAAATATGA
1 AAAGGCTTCGGCCAAATGTTATGAAATATGA
* * *
41844019 AAAGTCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCAAATGTTATGAAATATGA
41844050 AA
1 AA
41844052 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCAAATGTTATGAAATATGA
Found at i:41845502 original size:28 final size:28
Alignment explanation
Indices: 41845471--41845524 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
41845461 AGGTGTCTTA
41845471 CTTAATATCTCACACACCAAGTGCCATT
1 CTTAATATCTCACACACCAAGTGCCATT
* * *
41845499 CTTAATGTTTCACACACTAAGTGCCA
1 CTTAATATCTCACACACCAAGTGCCA
41845525 CATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (28 bp):
CTTAATATCTCACACACCAAGTGCCATT
Found at i:41845621 original size:40 final size:40
Alignment explanation
Indices: 41845535--41845610 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
41845525 CATATATATA
*
41845535 TAGCCGAAGCTATCACAAAACGCACACAATGTGCCACATT
1 TAGCCGAAGCTATCACAAAACGCACACAATATGCCACATT
*
41845575 TAGCCGAAGCTATTC-CAAATCGCACACTAA-ATGCCA
1 TAGCCGAAGCTA-TCACAAAACGCACAC-AATATGCCA
41845611 TTATTAGCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.18
Consensus pattern (40 bp):
TAGCCGAAGCTATCACAAAACGCACACAATATGCCACATT
Found at i:41848004 original size:24 final size:24
Alignment explanation
Indices: 41847967--41848096 Score: 215
Period size: 24 Copynumber: 5.4 Consensus size: 24
41847957 CTAGAGGCCT
*
41847967 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
41847992 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
41848016 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
41848040 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
41848064 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
41848088 AGCCCTTTT
1 AGCCCTTTT
41848097 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 95 0.96
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:41848174 original size:20 final size:20
Alignment explanation
Indices: 41848146--41848212 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
41848136 TTATGAATAC
*
41848146 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41848166 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
41848186 GTCATGCGCATATAATACAT
1 ATCATGTGCATATCATACAT
*
41848206 ACCATGT
1 ATCATGT
41848213 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41852252 original size:49 final size:49
Alignment explanation
Indices: 41852198--41852699 Score: 909
Period size: 49 Copynumber: 10.3 Consensus size: 49
41852188 CCGATGTCAC
41852198 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
41852247 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
41852296 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTCTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
41852345 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* *
41852394 ATATATACACTTTCACATTCTTCACATCGGCTATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
41852443 ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* *
41852492 ATATATACACTTTCACATTCATCACATCGGCTATTAGGGCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* *
41852541 ATATATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
41852588 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
41852637 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
41852686 ATATATACACTTTC
1 ATATATACACTTTC
41852700 CAATGAATAA
Statistics
Matches: 434, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 45 0.10
49 389 0.90
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:41854584 original size:42 final size:42
Alignment explanation
Indices: 41854538--41854776 Score: 133
Period size: 42 Copynumber: 5.5 Consensus size: 42
41854528 ACGTTTACTT
* *
41854538 GATGCCATAGT-CCA-ACTATGGTCTTACACGAAGTCTCACATC
1 GATGCCAT-GTCCCAGAC-ATGGTCTTACACGAAATCACACATC
* * *
41854580 GATGCCATTTCCCAGACATGGTCTTATACGAAATCACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCACACATC
*** * * * *
41854622 GATGCCGCATCCCAGACACGGTCTTACACGAAATCTCATACC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCACACATC
* * ** * * *
41854664 GAAGTCATACCCCAGATATAGTCTTACAC-ATAATCCCATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGA-AAT--CACA-C-AT--C
* * * * ** * *
41854712 GATGCCATATCCCAGATATAGTTTTACACGGGATCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCACACATC
41854754 GATGCCATGTCCCAGACATGGTC
1 GATGCCATGTCCCAGACATGGTC
41854777 AATTCCATAG
Statistics
Matches: 150, Mismatches: 37, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
41 2 0.01
42 111 0.74
43 2 0.01
44 4 0.03
46 3 0.02
48 28 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAAATCACACATC
Found at i:41854679 original size:84 final size:84
Alignment explanation
Indices: 41854557--41854712 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 84
41854547 GTCCAACTAT
* * * ** * *
41854557 GGTCTTACACGAAGTCTCACATCGATGCCATTTCCCAGACATGGTCTTATACGA-AATCACATAT
1 GGTCTTACACGAAATCTCACACCGAAGCCATACCCCAGACATAGTCTTACAC-ATAATCACATAT
41854621 CGATGCCGCATCCCAGACAC
65 CGATGCCGCATCCCAGACAC
* * * *
41854641 GGTCTTACACGAAATCTCATACCGAAGTCATACCCCAGATATAGTCTTACACATAATCCCATATC
1 GGTCTTACACGAAATCTCACACCGAAGCCATACCCCAGACATAGTCTTACACATAATCACATATC
41854706 GATGCCG
66 GATGCCG
41854713 ATGCCATATC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
83 1 0.02
84 59 0.98
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (84 bp):
GGTCTTACACGAAATCTCACACCGAAGCCATACCCCAGACATAGTCTTACACATAATCACATATC
GATGCCGCATCCCAGACAC
Found at i:41857652 original size:40 final size:40
Alignment explanation
Indices: 41857583--41857674 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
41857573 CCACATATAT
* * *
41857583 ATATGTAGCCGATGCTATCACAAATTGCACACCAAGTGCC
1 ATATTTAGCCGAAGCTATCACAAACTGCACACCAAGTGCC
** *
41857623 ATATTTAGCCGAAGCTATTTCAAACTGCACACTAAGTGCC
1 ATATTTAGCCGAAGCTATCACAAACTGCACACCAAGTGCC
41857663 AT-TCTTAGCCGA
1 ATAT-TTAGCCGA
41857675 TATGTCATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
ATATTTAGCCGAAGCTATCACAAACTGCACACCAAGTGCC
Found at i:41860213 original size:25 final size:25
Alignment explanation
Indices: 41860181--41860321 Score: 131
Period size: 25 Copynumber: 5.4 Consensus size: 25
41860171 AATCAAAATG
41860181 AGAATCAGAATTAGAATCAGGTGAC
1 AGAATCAGAATTAGAATCAGGTGAC
*
41860206 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAAT-----T-AGAATCAGGTGAC
*
41860237 AGAATCAGAATT-GATATCAGGTAAC
1 AGAATCAGAATTAGA-ATCAGGTGAC
*
41860262 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATTAGAATCAGGTGAC
* * * * * *
41860287 AAAATTAGAATCAGTATCAGGTAAT
1 AGAATCAGAATTAGAATCAGGTGAC
41860312 AGAATCAGAA
1 AGAATCAGAA
41860322 CCAGAATGTG
Statistics
Matches: 94, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.02
25 65 0.69
26 3 0.03
30 1 0.01
31 23 0.24
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAGGTGAC
Found at i:41860247 original size:6 final size:6
Alignment explanation
Indices: 41860169--41860228 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
41860159 TATCAAAACT
* * * *
41860169 AGAATC AAAATG AGAATC AGAATT AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
41860218 AGAATC AGAAT
1 AGAATC AGAAT
41860229 TAGGTGACAG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
5 1 0.02
6 38 0.88
7 3 0.07
8 1 0.02
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:41860271 original size:31 final size:29
Alignment explanation
Indices: 41860181--41860279 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 29
41860171 AATCAAAATG
41860181 AGAATCAGAATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATT-GAATCAGGT-ACAGAATC
* *
41860212 AGAATCAGAATCAGAATTAGGT---G-A-C
1 AGAATCAGAAT-TGAATCAGGTACAGAATC
41860237 AGAATCAGAATTGATATCAGGTAACAGAATC
1 AGAATCAGAATTGA-ATCAGGT-ACAGAATC
*
41860268 AGAATTAGAATT
1 AGAATCAGAATT
41860280 AGGTGACAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.04
25 18 0.33
26 1 0.02
27 1 0.02
29 1 0.02
30 1 0.02
31 31 0.56
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.22
Consensus pattern (29 bp):
AGAATCAGAATTGAATCAGGTACAGAATC
Found at i:41860300 original size:31 final size:31
Alignment explanation
Indices: 41860181--41860247 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
41860171 AATCAAAATG
*
41860181 AGAATCAGAATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
41860212 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
41860243 AGAAT
1 AGAAT
41860248 TGATATCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:41860305 original size:50 final size:50
Alignment explanation
Indices: 41860211--41860328 Score: 166
Period size: 50 Copynumber: 2.4 Consensus size: 50
41860201 GTGACAGAAT
* *
41860211 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATTGATATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGACAAAATCAGAATAGATATCAGGTAA
* *
41860261 CAGAATCAGAATTAGAATTAGGTGACAAAATTAGAATCAG-TATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGACAAAATCAGAAT-AGATATCAGGTAA
* *
41860311 TAGAATCAGAACCAGAAT
1 CAGAATCAGAATCAGAAT
41860329 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 59 0.98
51 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (50 bp):
CAGAATCAGAATCAGAATTAGGTGACAAAATCAGAATAGATATCAGGTAA
Found at i:41860686 original size:22 final size:22
Alignment explanation
Indices: 41860658--41860722 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
41860648 GCAAATACAT
*
41860658 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
41860680 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
41860702 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
41860723 AATAATTGGC
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:41861159 original size:27 final size:27
Alignment explanation
Indices: 41861129--41861251 Score: 147
Period size: 27 Copynumber: 4.6 Consensus size: 27
41861119 ACGCCACAAA
* * *
41861129 GGTATCTCGGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * * *
41861156 GGTATTTTAATATTTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
41861183 GGTATTTCGGTAATTCTACCATACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
41861210 GGTGTTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
41861237 GGTATTTCAATAATT
1 GGTATTTCAGTAATT
41861252 TTGTAAATCA
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:41869569 original size:40 final size:40
Alignment explanation
Indices: 41869475--41869619 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
41869465 TACTCGAATG
*
41869475 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
41869516 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
41869556 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
41869596 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
41869620 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:41872381 original size:16 final size:17
Alignment explanation
Indices: 41872360--41872400 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
41872350 TATACCATTC
41872360 TCAAAT-ACAAAGCATA
1 TCAAATAACAAAGCATA
*
41872376 TCAAATAATAAAGCATA
1 TCAAATAACAAAGCATA
*
41872393 TCATATAA
1 TCAAATAA
41872401 TACATATACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (17 bp):
TCAAATAACAAAGCATA
Found at i:41872390 original size:17 final size:17
Alignment explanation
Indices: 41872368--41872402 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
41872358 TCTCAAATAC
41872368 AAAGCATATCAAATAAT
1 AAAGCATATCAAATAAT
*
41872385 AAAGCATATCATATAAT
1 AAAGCATATCAAATAAT
41872402 A
1 A
41872403 CATATACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAGCATATCAAATAAT
Found at i:41879321 original size:64 final size:64
Alignment explanation
Indices: 41879240--41879408 Score: 180
Period size: 67 Copynumber: 2.6 Consensus size: 64
41879230 AGACATTATG
* *
41879240 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
41879304 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41879369 AA
63 AA
* * * *
41879371 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCA
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCA
41879409 CATGTACAAG
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
63 6 0.07
64 21 0.25
65 8 0.10
66 16 0.19
67 31 0.37
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41883828 original size:43 final size:42
Alignment explanation
Indices: 41883767--41883881 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
41883757 GATGCCACTG
*
41883767 CCCAGACAGGGTCTTACACGAAATCACATA-ATGATGCAAATGT
1 CCCAGACATGGTCTTACACGAAATCACATACA--ATGCAAATGT
* * *
41883810 CCTAGACGTGGTCTTACAC-ATAATCACAATACAATGCCAATGT
1 CCCAGACATGGTCTTACACGA-AATCAC-ATACAATGCAAATGT
* * *
41883853 CCCAGATATGGTCTTACATGTAATCACAT
1 CCCAGACATGGTCTTACACGAAATCACAT
41883882 CTCGCTAATC
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
42 3 0.05
43 52 0.88
44 3 0.05
45 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
CCCAGACATGGTCTTACACGAAATCACATACAATGCAAATGT
Found at i:41894286 original size:27 final size:27
Alignment explanation
Indices: 41894245--41894333 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
41894235 AACCATATAT
*
41894245 CACATAGGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
41894272 CATATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
41894299 AACCTAAGGG-AATAACAGTCATCTTAC
1 CACATAAGGGCAA-AACAGTCATTTTAC
41894326 CACATAAG
1 CACATAAG
41894334 CGGTTATAGG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:41895330 original size:25 final size:27
Alignment explanation
Indices: 41895240--41895334 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
41895230 TATAACCATA
* *
41895240 TATCACATAGGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
41895267 TATCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
41895294 TATCACATAAGGGCAAAATAGTCA-TT
1 TATCACATAAGGGCAAAATAGTCATTT
41895320 T-TCACATAAGGGCAA
1 TATCACATAAGGGCAA
41895335 TATGACAGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 14 0.21
26 3 0.05
27 49 0.74
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (27 bp):
TATCACATAAGGGCAAAATAGTCATTT
Found at i:41897068 original size:79 final size:80
Alignment explanation
Indices: 41896932--41897116 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
41896922 TTGAATGATG
*
41896932 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
41896997 GTGTGAGATACTAAT
66 GTGCGAGATACTAAT
* * * * **
41897012 TCCGGGCTAAG-CTCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
41897074 TTGTGCGAGTTACT-AT
64 TTGTGCGAGATACTAAT
* * *
41897090 AACTGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGC-TTTG
41897117 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 31 0.35
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:41897123 original size:40 final size:40
Alignment explanation
Indices: 41896932--41897116 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
41896922 TTGAATGATG
* * * *
41896932 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
41896972 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41897012 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41897051 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41897092 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41897117 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.66
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41897138 original size:79 final size:79
Alignment explanation
Indices: 41896985--41897149 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
41896975 GGACTAAGAT
* * * **
41896985 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
41897050 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
41897064 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
41897127 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41897143 CCGAAGG
1 CCGAAGG
41897150 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41899450 original size:27 final size:27
Alignment explanation
Indices: 41899420--41899536 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
41899410 TATAACCATA
*
41899420 TACCACGT-AGGGCCAAAACAGTCATTT
1 TACCACATAAGGG-CAAAACAGTCATTT
* *
41899447 TACCACATAATGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAACAGTCATTT
* *
41899474 TATCACATAAGGGCAAAACAATCATTT
1 TACCACATAAGGGCAAAACAGTCATTT
* *
41899501 T--CACATAAGGGAAAAACAGTCATCT
1 TACCACATAAGGGCAAAACAGTCATTT
41899526 TACCACATAAG
1 TACCACATAAG
41899537 CGGGTCTAGG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.29
27 52 0.68
28 3 0.04
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (27 bp):
TACCACATAAGGGCAAAACAGTCATTT
Found at i:41899533 original size:52 final size:54
Alignment explanation
Indices: 41899420--41899536 Score: 141
Period size: 52 Copynumber: 2.2 Consensus size: 54
41899410 TATAACCATA
* * * * * *
41899420 TACCACGT-AGGGCCAAAACAGTCATTTTACCACATAATGGCAAAATAGTCATTT
1 TACCACATAAGGGCCAAAACAATCATTTTA-CACATAAGGGAAAAACAGTCATCT
*
41899474 TATCACATAAGGG-CAAAACAATCATTTT-CACATAAGGGAAAAACAGTCATCT
1 TACCACATAAGGGCCAAAACAATCATTTTACACATAAGGGAAAAACAGTCATCT
41899526 TACCACATAAG
1 TACCACATAAG
41899537 CGGGTCTAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 30 0.56
54 20 0.37
55 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (54 bp):
TACCACATAAGGGCCAAAACAATCATTTTACACATAAGGGAAAAACAGTCATCT
Found at i:41899647 original size:10 final size:10
Alignment explanation
Indices: 41899632--41899657 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
41899622 ATAGGCCTAA
41899632 GGCCCAGGTG
1 GGCCCAGGTG
41899642 GGCCCAGGTG
1 GGCCCAGGTG
41899652 GGCCCA
1 GGCCCA
41899658 CATTCCTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.35, G:0.46, T:0.08
Consensus pattern (10 bp):
GGCCCAGGTG
Found at i:41900096 original size:27 final size:27
Alignment explanation
Indices: 41900058--41900111 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
41900048 AATGGAGCCT
41900058 AATGGAGTTCCCAAACTAACCATAGTC
1 AATGGAGTTCCCAAACTAACCATAGTC
*
41900085 AATGGAGTTCCCTAACTAACCATAGTC
1 AATGGAGTTCCCAAACTAACCATAGTC
41900112 TCCTTTCCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (27 bp):
AATGGAGTTCCCAAACTAACCATAGTC
Found at i:41902605 original size:18 final size:18
Alignment explanation
Indices: 41902575--41902629 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
41902565 CTTAGCCCAT
*
41902575 TGCAGTAACAGTAAACAG
1 TGCAGAAACAGTAAACAG
* *
41902593 TGCAGAAATAGTAAACAA
1 TGCAGAAACAGTAAACAG
* *
41902611 TGCAGTAACAATAAACAG
1 TGCAGAAACAGTAAACAG
41902629 T
1 T
41902630 ATACAAGTCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (18 bp):
TGCAGAAACAGTAAACAG
Found at i:41902990 original size:27 final size:27
Alignment explanation
Indices: 41902960--41903095 Score: 166
Period size: 27 Copynumber: 5.1 Consensus size: 27
41902950 ATCACTTAAA
* *
41902960 GGCAAAACAGTCATTTTACCACATAAG
1 GGCAAAATAGTCATTTTACCATATAAG
* *
41902987 GGCAAAATAGTTATTTTACTATATAAG
1 GGCAAAATAGTCATTTTACCATATAAG
*
41903014 GGCAAAATAGTCATTTTATCATATAAG
1 GGCAAAATAGTCATTTTACCATATAAG
* * * *
41903041 GCCAAAATAGTCATTCTATCACAT-AG
1 GGCAAAATAGTCATTTTACCATATAAG
* *
41903067 GGCAAAACAGTCATCTTACCATATAAG
1 GGCAAAATAGTCATTTTACCATATAAG
41903094 GG
1 GG
41903096 GGTCTAGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
26 20 0.22
27 72 0.78
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
GGCAAAATAGTCATTTTACCATATAAG
Found at i:41903230 original size:18 final size:17
Alignment explanation
Indices: 41903203--41903236 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41903193 CATTACGCGG
41903203 GCCTAGGTGGGCCCACAT
1 GCCTAGGT-GGCCCACAT
*
41903221 GCCTATGTGGCCCACA
1 GCCTAGGTGGCCCACA
41903237 AATCTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (17 bp):
GCCTAGGTGGCCCACAT
Found at i:41906012 original size:50 final size:50
Alignment explanation
Indices: 41905915--41906085 Score: 243
Period size: 50 Copynumber: 3.4 Consensus size: 50
41905905 TCAGGTTGCC
* * * *
41905915 GAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCT
1 GAAGCTATCACTTATCACTT-TCACTTGTTCTTGATCAGATAAGTGTAGCT
*
41905966 GAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCT
* * * *
41906016 GGAGCTATCACTTATCAGTTTCACTTGTTCTTGATCAGATAATTATAGCT
1 GAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCT
*
41906066 AAAGCTATCACTTATCACTT
1 GAAGCTATCACTTATCACTT
41906086 GTTGCCATGG
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 89 0.83
51 18 0.17
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (50 bp):
GAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCT
Found at i:41907971 original size:507 final size:507
Alignment explanation
Indices: 41907018--41908037 Score: 2031
Period size: 507 Copynumber: 2.0 Consensus size: 507
41907008 GATTTCTAAA
41907018 ATTTTTGGTGATTTTTCAAAGTTTGACTACTGCTGCTATCCAAAACAGTTTTAGTGCAAGTTATT
1 ATTTTTGGTGATTTTTCAAAGTTTGACTACTGCTGCTATCCAAAACAGTTTTAGTGCAAGTTATT
41907083 GATTTCCATTTTGCCCCAAATTTCACAGTTCATACAATTCAGTCCTTGCTCAATTAACCCCTCAA
66 GATTTCCATTTTGCCCCAAATTTCACAGTTCATACAATTCAGTCCTTGCTCAATTAACCCCTCAA
41907148 TTGAGATAATTTTTCTCAATTAATACTTTATTATATCATTTTAAACTACTTCATAATCCTTTAAA
131 TTGAGATAATTTTTCTCAATTAATACTTTATTATATCATTTTAAACTACTTCATAATCCTTTAAA
41907213 ATTATAATTTTAGCACTAGACCTTATTTCCAAACTCTTTCACAATTAGGTCCTAAAGTTAGTTTC
196 ATTATAATTTTAGCACTAGACCTTATTTCCAAACTCTTTCACAATTAGGTCCTAAAGTTAGTTTC
41907278 CATCAATTGTACTTAATAAAATCATCATATATCAAAATTAAAGCTTCAATTATATGTTTAATCAT
261 CATCAATTGTACTTAATAAAATCATCATATATCAAAATTAAAGCTTCAATTATATGTTTAATCAT
41907343 CATATGCTTCCAGACTCATCCATAAAAACTTTAAAAATTATTCATGGTATCAAAAACTAATGAAA
326 CATATGCTTCCAGACTCATCCATAAAAACTTTAAAAATTATTCATGGTATCAAAAACTAATGAAA
41907408 TAGTAAGTTGAACCCAATTGTAAAAGTCCAAAAACATAAAAATTTCAAGGAGAAAGCAAGAATTA
391 TAGTAAGTTGAACCCAATTGTAAAAGTCCAAAAACATAAAAATTTCAAGGAGAAAGCAAGAATTA
41907473 AACTTACATGAAGCTAGAGTATGAAAACCAGCTTGAACCCTCCTCCATGACT
456 AACTTACATGAAGCTAGAGTATGAAAACCAGCTTGAACCCTCCTCCATGACT
41907525 ATTTTTGGTGATTTTTCAAAGTTTGACTACTGCTGCTATCCAAAACAGTTTTAGTGCAAGTTATT
1 ATTTTTGGTGATTTTTCAAAGTTTGACTACTGCTGCTATCCAAAACAGTTTTAGTGCAAGTTATT
41907590 GATTTCCATTTTGCCCCAAATTTCACAGTTCATACAATTCAGTCCTTGCTCAATTAACCCCTCAA
66 GATTTCCATTTTGCCCCAAATTTCACAGTTCATACAATTCAGTCCTTGCTCAATTAACCCCTCAA
41907655 TTGAGATAATTTTTCTCAATTAATACTTTATTATATCATTTTAAACTACTTCATAATCCTTTAAA
131 TTGAGATAATTTTTCTCAATTAATACTTTATTATATCATTTTAAACTACTTCATAATCCTTTAAA
41907720 ATTATAATTTTAGCACTAGACCTTATTTCCAAACTCTTTCACAATTAGGTCCTAAAGTTAGTTTC
196 ATTATAATTTTAGCACTAGACCTTATTTCCAAACTCTTTCACAATTAGGTCCTAAAGTTAGTTTC
*
41907785 CATCAATTGTACTTAATAAAATCATCATATATCAAAATTAAAGCTTCAATTATATGTTTATTCAT
261 CATCAATTGTACTTAATAAAATCATCATATATCAAAATTAAAGCTTCAATTATATGTTTAATCAT
41907850 CATATGCTTCCAGACTCATCCATAAAAACTTTAAAAATTATTCATGGTATCAAAAACTAATGAAA
326 CATATGCTTCCAGACTCATCCATAAAAACTTTAAAAATTATTCATGGTATCAAAAACTAATGAAA
41907915 TAGTAAGTTGAACCCAATTGTAAAAGTCCAAAAACATAAAAATTTCAAGGAGAAAGCAAGAATTA
391 TAGTAAGTTGAACCCAATTGTAAAAGTCCAAAAACATAAAAATTTCAAGGAGAAAGCAAGAATTA
41907980 AACTTACATGAAGCTAGAGTATGAAAACCAGCTTGAACCCTCCTCCATGACT
456 AACTTACATGAAGCTAGAGTATGAAAACCAGCTTGAACCCTCCTCCATGACT
41908032 ATTTTT
1 ATTTTT
41908038 CAGCTAATGA
Statistics
Matches: 512, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
507 512 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (507 bp):
ATTTTTGGTGATTTTTCAAAGTTTGACTACTGCTGCTATCCAAAACAGTTTTAGTGCAAGTTATT
GATTTCCATTTTGCCCCAAATTTCACAGTTCATACAATTCAGTCCTTGCTCAATTAACCCCTCAA
TTGAGATAATTTTTCTCAATTAATACTTTATTATATCATTTTAAACTACTTCATAATCCTTTAAA
ATTATAATTTTAGCACTAGACCTTATTTCCAAACTCTTTCACAATTAGGTCCTAAAGTTAGTTTC
CATCAATTGTACTTAATAAAATCATCATATATCAAAATTAAAGCTTCAATTATATGTTTAATCAT
CATATGCTTCCAGACTCATCCATAAAAACTTTAAAAATTATTCATGGTATCAAAAACTAATGAAA
TAGTAAGTTGAACCCAATTGTAAAAGTCCAAAAACATAAAAATTTCAAGGAGAAAGCAAGAATTA
AACTTACATGAAGCTAGAGTATGAAAACCAGCTTGAACCCTCCTCCATGACT
Found at i:41914016 original size:14 final size:14
Alignment explanation
Indices: 41913997--41914030 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
41913987 GTCTAAAATA
41913997 TGTGAATATGAATG
1 TGTGAATATGAATG
41914011 TGTGAATATGAATG
1 TGTGAATATGAATG
41914025 TGTGAA
1 TGTGAA
41914031 AGTTTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (14 bp):
TGTGAATATGAATG
Found at i:41915855 original size:40 final size:40
Alignment explanation
Indices: 41915759--41915942 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
41915749 TATTGGGATG
41915759 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
41915802 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
41915842 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
41915882 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* *
41915922 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
41915943 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 14 0.11
40 81 0.63
41 2 0.02
43 31 0.24
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:41917280 original size:49 final size:49
Alignment explanation
Indices: 41917224--41917970 Score: 1186
Period size: 49 Copynumber: 15.6 Consensus size: 49
41917214 TATTTGAATA
*
41917224 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
41917273 AATGTGAAACTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917322 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917369 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917418 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917514 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917561 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917610 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917657 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917706 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917753 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917802 AATGTGAAAGTG--TATATATGTGATAA-GCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
41917848 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * * *
41917897 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTAGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41917944 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41917971 TCCCGAAGGG
Statistics
Matches: 649, Mismatches: 34, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
46 30 0.05
47 287 0.44
48 15 0.02
49 317 0.49
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:41917357 original size:96 final size:96
Alignment explanation
Indices: 41917224--41917970 Score: 1365
Period size: 96 Copynumber: 7.8 Consensus size: 96
41917214 TATTTGAATA
* * *
41917224 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
41917289 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
41917322 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41917387 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
41917418 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41917483 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
41917514 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41917579 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
41917610 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41917675 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
41917706 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41917771 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
41917802 AATGTGAAAGTGTATATATGTGATAA-GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
41917866 TATGTGATAAGGCCTAATGGCCAATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
41917897 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTAGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41917961 -ATGTGATAAG
66 TATGTGATAAG
41917971 TCCCGAAGGG
Statistics
Matches: 638, Mismatches: 10, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
94 10 0.02
95 93 0.15
96 523 0.82
98 12 0.02
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:41919782 original size:40 final size:40
Alignment explanation
Indices: 41919432--41919770 Score: 471
Period size: 40 Copynumber: 8.5 Consensus size: 40
41919422 GAAATGTCCA
* * *
41919432 GGCTAAATCCCCAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
* * * *
41919472 GACTAAATTCCGAAGAGCATTCGTGCTAGTGATATATCTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
41919512 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
* *
41919552 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
41919592 GGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
* * * *
41919632 GACTAAGTCCCGAATAGCATTCGTACTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
41919672 GGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
* ** * * *
41919712 TGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
41919752 GGCTAGGTCCCGAAGAGCA
1 GGCTAAGTCCCGAAGAGCA
41919771 ATCATGCTGG
Statistics
Matches: 261, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
Found at i:41920051 original size:58 final size:57
Alignment explanation
Indices: 41919982--41920090 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
41919972 CGAATGATTA
* * * *
41919982 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGAACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGGGCGAAATCGGTAATT
* * *
41920040 GAGGAACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGGGCGAGATCG
1 GAGGAACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGGGCGAAATCG
41920091 ATCAGTGGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 25 0.57
58 19 0.43
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (57 bp):
GAGGAACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGGGCGAAATCGGTAATT
Found at i:41920279 original size:90 final size:89
Alignment explanation
Indices: 41920124--41920312 Score: 369
Period size: 90 Copynumber: 2.1 Consensus size: 89
41920114 AATGAGATTC
41920124 ATGTAAGACCTCGTCTGGGATGAAGGCATTGATTGAGATGTTGTGTAAGACCATGTCTAGGACAT
1 ATGTAAGACCTCGTCTGGGATGAAGGCATTGATTGAGATGTTGTGTAAGACCATGTCTAGGACAT
41920189 GGCATCGACTCGATATGTGATAAT
66 GGCATCGACTCGATATGTGATAAT
41920213 ATGTAAGACCTCGTCTGGGATGAAGGCATTGATTTGAGATGTTGTGTAAGACCATGTCTAGGACA
1 ATGTAAGACCTCGTCTGGGATGAAGGCATTGA-TTGAGATGTTGTGTAAGACCATGTCTAGGACA
41920278 TGGCATCGACTCGATATGTGATAAT
65 TGGCATCGACTCGATATGTGATAAT
41920303 ATGTAAGACC
1 ATGTAAGACC
41920313 ATGGTTGGAC
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 32 0.32
90 67 0.68
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (89 bp):
ATGTAAGACCTCGTCTGGGATGAAGGCATTGATTGAGATGTTGTGTAAGACCATGTCTAGGACAT
GGCATCGACTCGATATGTGATAAT
Found at i:41920328 original size:47 final size:47
Alignment explanation
Indices: 41920167--41920315 Score: 166
Period size: 47 Copynumber: 3.3 Consensus size: 47
41920157 TGAGATGTTG
41920167 TGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGATAATA
1 TGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGATAATA
* * * * * ** *
41920214 TGTAAGACC-TCGTCTGGGATGAAGGCAT----T-GATTTGAGATGTTG
1 TGTAAGACCAT-GTCTAGGA-CATGGCATCGACTCGATATGTGATAATA
41920257 TGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGATAATA
1 TGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGATAATA
41920304 TGTAAGACCATG
1 TGTAAGACCATG
41920316 GTTGGACTAT
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
42 6 0.08
43 25 0.32
44 2 0.03
46 2 0.03
47 37 0.47
48 6 0.08
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (47 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGATAATA
Found at i:41923816 original size:49 final size:49
Alignment explanation
Indices: 41923760--41924425 Score: 944
Period size: 49 Copynumber: 13.6 Consensus size: 49
41923750 TATTTGAATA
*
41923760 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
41923809 AATGTGAAACTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41923858 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41923905 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41923954 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
41924001 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41924050 AATGTGAAAGTGTGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAA----G--TGT---A---TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41924111 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41924160 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
41924207 AATGTTACAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
41924256 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGAGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
41924303 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
41924352 AATGTGAAAGTG--TATATATGTGA-CAGGGCTGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCAATGTGATG
*
41924399 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41924426 TCCCGAAGGG
Statistics
Matches: 560, Mismatches: 33, Indels: 49
0.87 0.05 0.08
Matches are distributed among these distances:
46 5 0.01
47 218 0.39
48 3 0.01
49 281 0.50
52 1 0.00
53 1 0.00
55 6 0.01
57 1 0.00
58 1 0.00
61 43 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:41923893 original size:96 final size:96
Alignment explanation
Indices: 41923760--41924425 Score: 996
Period size: 96 Copynumber: 6.8 Consensus size: 96
41923750 TATTTGAATA
* * *
41923760 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
41923825 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
41923858 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41923923 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
41923954 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
41924019 TATGTGATAAGGCCTAATGGCCAATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
41924050 AATGTGAAAGTGTGAATGTGAAAGTGTATATATG-TGATAAGGCCGAATGGCCAATGTGATGAAT
1 AATGTGAAAGTGT--ATAT--ATGTG-ATA-AGGCCGA-ATGG-C-------CAATGTGATGAAT
41924114 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
41924160 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTTACAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41924225 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
41924256 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGAGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41924321 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
41924352 AATGTGAAAGTGTATATATGTGACAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41924416 -ATGTGATAAG
66 TATGTGATAAG
41924426 TCCCGAAGGG
Statistics
Matches: 525, Mismatches: 27, Indels: 36
0.89 0.05 0.06
Matches are distributed among these distances:
94 10 0.02
95 1 0.00
96 395 0.75
98 15 0.03
100 4 0.01
101 5 0.01
102 5 0.01
103 2 0.00
104 5 0.01
105 5 0.01
106 4 0.01
108 3 0.01
110 71 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:41924067 original size:14 final size:14
Alignment explanation
Indices: 41924048--41924076 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
41924038 GCCAATGTGA
41924048 TGAATGTGAAAGTG
1 TGAATGTGAAAGTG
41924062 TGAATGTGAAAGTG
1 TGAATGTGAAAGTG
41924076 T
1 T
41924077 ATATATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (14 bp):
TGAATGTGAAAGTG
Found at i:41924099 original size:61 final size:62
Alignment explanation
Indices: 41923999--41924123 Score: 225
Period size: 61 Copynumber: 2.0 Consensus size: 62
41923989 GCCAATGTGA
*
41923999 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
41924062 TGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
41924123 T
1 T
41924124 ATATATATGT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 47 0.77
63 14 0.23
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (62 bp):
TGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:41924116 original size:31 final size:31
Alignment explanation
Indices: 41924020--41924117 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 31
41924010 GTGTATATAT
*
41924020 ATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
41924051 ATGTGA-AAGTG-TGAATGTG--AAAGTGTAT-A
1 ATGTGATAAG-GCCGAATG-GCCAATGTG-ATGA
41924080 TATGTGATAAGGCCGAATGGCCAATGTGATGA
1 -ATGTGATAAGGCCGAATGGCCAATGTGATGA
41924112 ATGTGA
1 ATGTGA
41924118 AAGTGTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
29 6 0.11
30 17 0.32
31 24 0.45
32 6 0.11
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.28
Consensus pattern (31 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:41924308 original size:302 final size:303
Alignment explanation
Indices: 41923760--41924364 Score: 1131
Period size: 302 Copynumber: 2.0 Consensus size: 303
41923750 TATTTGAATA
* *
41923760 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAACTGTATA
41923825 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
65 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
41923890 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
130 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
41923955 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
195 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGAGATGAATGTGAAAGTGTATATAT
41924020 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
260 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
*
41924064 AATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAACTGTATAT
41924128 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
* *
41924193 TGGCCAATGTGATGAATGTTACAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
131 TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
41924258 TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGAGATGAATGTGAAAGTGTATATATA
196 TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGAGATGAATGTGAAAGTGTATATATA
*
41924323 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
261 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
41924365 ATATATGTGA
Statistics
Matches: 294, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
302 282 0.96
304 12 0.04
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (303 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAACTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGAGATGAATGTGAAAGTGTATATATA
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
Found at i:41932433 original size:25 final size:28
Alignment explanation
Indices: 41932405--41932469 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
41932395 ATAAAACCTA
41932405 AAAATAAAAAATA-TTAAAG-GA-AAAT
1 AAAATAAAAAATACTTAAAGAGATAAAT
41932430 AAAATAAAAAAATACTTAAAGAAGATAAAT
1 AAAAT-AAAAAATACTTAAAG-AGATAAAT
41932460 AAAGATAAAA
1 AAA-ATAAAA
41932470 GTGAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.15
26 8 0.24
27 6 0.18
29 2 0.06
30 11 0.32
31 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (28 bp):
AAAATAAAAAATACTTAAAGAGATAAAT
Found at i:41932439 original size:26 final size:29
Alignment explanation
Indices: 41932405--41932469 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 29
41932395 ATAAAACCTA
41932405 AAAAT-AAAAAATA-TTAAAG-GA-AAAT
1 AAAATAAAAAAATACTTAAAGAGATAAAT
41932430 AAAATAAAAAAATACTTAAAGAAGATAAAT
1 AAAATAAAAAAATACTTAAAG-AGATAAAT
41932460 AAAGATAAAA
1 AAA-ATAAAA
41932470 GTGAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.15
26 8 0.24
27 6 0.18
29 2 0.06
30 7 0.21
31 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (29 bp):
AAAATAAAAAAATACTTAAAGAGATAAAT
Found at i:41940377 original size:21 final size:21
Alignment explanation
Indices: 41940351--41940390 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
41940341 ATTATCTTCA
41940351 ATGCATGAATAGATATATGAG
1 ATGCATGAATAGATATATGAG
41940372 ATGCATGAATAGATATATG
1 ATGCATGAATAGATATATG
41940391 CAAACTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (21 bp):
ATGCATGAATAGATATATGAG
Found at i:41944212 original size:45 final size:45
Alignment explanation
Indices: 41944148--41944234 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
41944138 TCAAAACATG
* * *
41944148 TGTCATATATATCACGAACTCAAATCACAACTTAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGA
* *
41944193 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTC
41944235 AGATCACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGA
Found at i:41947385 original size:29 final size:29
Alignment explanation
Indices: 41947324--41947413 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
41947314 TACATACATG
* * *
41947324 TATATGGCCCACTT-GGTCC-AATCTCATT
1 TATATGGCCCA-TTAGGCCCAAATCACCTT
41947352 TATATGGCCCATTAGGCCCAAATCACCTT
1 TATATGGCCCATTAGGCCCAAATCACCTT
* *
41947381 TATATAGCCCGTTAGGCCCAAATCACC-T
1 TATATGGCCCATTAGGCCCAAATCACCTT
41947409 TATAT
1 TATAT
41947414 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.04
28 21 0.38
29 32 0.58
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACCTT
Found at i:41947649 original size:16 final size:16
Alignment explanation
Indices: 41947628--41947666 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
41947618 CCAAACTTTT
*
41947628 GGCTTTTCGGCATTTC
1 GGCTTTTCGACATTTC
41947644 GGCTTTTCGACATTTC
1 GGCTTTTCGACATTTC
41947660 GGCTTTT
1 GGCTTTT
41947667 GCCGATCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:41954889 original size:37 final size:37
Alignment explanation
Indices: 41954834--41954934 Score: 186
Period size: 37 Copynumber: 2.7 Consensus size: 37
41954824 GCTCAGACGA
41954834 AATCTCCACACG-ACGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTA-GTCATCGGGTCTTACCCGGACAT
41954871 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
41954908 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
41954935 TAGAGCTCGG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
37 62 0.98
38 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:41955149 original size:47 final size:47
Alignment explanation
Indices: 41955096--41955992 Score: 1409
Period size: 47 Copynumber: 18.7 Consensus size: 47
41955086 GTTGGCCCTG
41955096 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
41955143 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
41955190 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
41955237 TCACATATATACACTTTCACATTCATCACATCGACTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
41955284 TCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
41955331 TCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
41955380 TGACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
41955427 TCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
41955476 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* * *
41955523 TCACATATATATACACTGTAACATTCATCACATTGGCCATTCA-GCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGCCTTA
41955572 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
41955619 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
41955668 TCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
41955715 TCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
41955764 TCACATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* * * *
41955811 TAACATATATATACACTTTCACATTCATCGCATTGGCCATTCGGCCTTA
1 T--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
41955860 TCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
41955907 TCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
41955958 TCACATATATATACACTTTCACATTCATCACATCG
1 TCAC--ATATATACACTTTCACATTCATCACATCG
41955993 AATCCTAAAT
Statistics
Matches: 788, Mismatches: 44, Indels: 34
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 448 0.57
49 292 0.37
50 1 0.00
51 46 0.06
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:41955378 original size:96 final size:96
Alignment explanation
Indices: 41955096--41955992 Score: 1532
Period size: 96 Copynumber: 9.3 Consensus size: 96
41955086 GTTGGCCCTG
41955096 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
* *
41955159 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
*
41955190 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
* * * *
41955253 TCACATTCATCACATCGACTATTAGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
* *
41955284 TCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATAGACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
41955349 TCACATTCATCACATTGGCCATTCGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
* *
41955380 TGACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAGACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
41955445 TCACATTCATCACATTGGCCATTCGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
*
41955476 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
* *
41955541 TAACATTCATCACATTGGCCATTCAGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
41955572 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
41955637 TCACATTCATCACATTGGCCATTCGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
* *
41955668 TCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATAGACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
41955733 TCACATTCATCACATTGGCCATTCGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
* *
41955764 TCACATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATAACATATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
*
41955829 TCACATTCATCGCATTGGCCATTCGGCCTTA
66 TCACATTCATCACATTGGCCATTCGGCCTTA
*
41955860 TCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACAC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATATACAC
* *
41955925 TTTCACATTCATCACATCGGCCATTAGGCCTTA
64 TTTCACATTCATCACATTGGCCATTCGGCCTTA
41955958 TCACATATATATACACTTTCACATTCATCACATCG
1 TCAC--ATATATACACTTTCACATTCATCACATCG
41955993 AATCCTAAAT
Statistics
Matches: 763, Mismatches: 34, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
94 140 0.18
96 549 0.72
98 46 0.06
100 28 0.04
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (96 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
TCACATTCATCACATTGGCCATTCGGCCTTA
Found at i:41958539 original size:40 final size:40
Alignment explanation
Indices: 41958471--41958727 Score: 306
Period size: 40 Copynumber: 6.5 Consensus size: 40
41958461 TCACAAGTAT
* *
41958471 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
41958510 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
41958550 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAATGC
* * *
41958590 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
41958630 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAATGC
* * * *
41958670 CTTCGGGACATAGCCCAGATATAGCAACTAGCACAAATTC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
41958710 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
41958728 TTATCATCCG
Statistics
Matches: 185, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 166 0.90
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:41958596 original size:80 final size:80
Alignment explanation
Indices: 41958471--41958727 Score: 385
Period size: 80 Copynumber: 3.2 Consensus size: 80
41958461 TCACAAGTAT
* * * * *
41958471 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
41958533 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
41958550 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
41958615 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
41958630 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCAGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
* *
41958695 AACTAGCACAAATTC
66 AACTCGCACAAATGC
* *
41958710 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
41958728 TTATCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 152 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:41967034 original size:40 final size:40
Alignment explanation
Indices: 41966967--41967223 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
41966957 ACCCAAGTAT
*
41966967 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
41967006 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
41967046 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
41967086 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
41967126 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
41967166 CTTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
41967206 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
41967224 TTATCATCCG
Statistics
Matches: 185, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 166 0.90
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:41967100 original size:80 final size:80
Alignment explanation
Indices: 41966967--41967223 Score: 403
Period size: 80 Copynumber: 3.2 Consensus size: 80
41966957 ACCCAAGTAT
* * * * *
41966967 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
41967029 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
41967046 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
41967111 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
41967126 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCAGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
41967191 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
41967206 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
41967224 TTATCATCCG
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 154 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:41971691 original size:29 final size:29
Alignment explanation
Indices: 41971620--41971795 Score: 194
Period size: 29 Copynumber: 6.1 Consensus size: 29
41971610 ACCCCTACAT
* *
41971620 ACATGCATATAGCCCACTT-GGCCC-AATC
1 ACATTCATATGGCCCA-TTAGGCCCAAATC
* * *
41971648 TCATTTATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
41971677 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
41971706 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * **
41971735 ACCTTTATATGGCCTGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
41971764 ACCTTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
41971793 ACA
1 ACA
41971796 ATATATTCAT
Statistics
Matches: 128, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
27 2 0.02
28 17 0.13
29 109 0.85
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:41971756 original size:87 final size:86
Alignment explanation
Indices: 41971625--41971789 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 86
41971615 TACATACATG
* *
41971625 CATATAGCCCACTTGGCCCAATCTCATTTATATGGCCCATTAGGCCCAATTCACATTCATATGGC
1 CATATAGCCCACTTGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCACATTCATATGGC
41971690 CCATCAGGCCCAATTCATATT
66 CCATCAGGCCCAATTCATATT
* * ** * *
41971711 CATATGGCCCA-TTAGGCCCAAATCACCTTTATATGGCCTGTTAGGCCCAAATCACCTTTATATG
1 CATATAGCCCACTT-GGCCC-AATCACATTTATATGGCCCATTAGGCCCAAATCACATTCATATG
* *
41971775 GCCCGTTAGGCCCAA
64 GCCCATCAGGCCCAA
41971790 ATCACAATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 2 0.03
86 15 0.22
87 50 0.75
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (86 bp):
CATATAGCCCACTTGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCACATTCATATGGC
CCATCAGGCCCAATTCATATT
Done.