Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 140 of 290
Found at i:44272907 original size:44 final size:45
Alignment explanation
Indices: 44272820--44272910 Score: 175
Period size: 44 Copynumber: 2.0 Consensus size: 45
44272810 GCTAATACTC
44272820 AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
1 AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
44272865 AATTTAATAATCTGGAGTTGGCC-TTTTCTAGGTTGAAGAAGGGG
1 AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
44272909 AA
1 AA
44272911 GATGGAGAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 23 0.50
45 23 0.50
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.34
Consensus pattern (45 bp):
AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
Found at i:44273002 original size:24 final size:24
Alignment explanation
Indices: 44272957--44273009 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
44272947 TTTAAAATAA
*
44272957 ATTTAATTTAATATAATTATTTTT
1 ATTTAATTTAATATAATAATTTTT
44272981 ATTTAATATTAATATAA-AATTTTT
1 ATTTAAT-TTAATATAATAATTTTT
44273005 ATTTA
1 ATTTA
44273010 TTTTTTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTAATTTAATATAATAATTTTT
Found at i:44276755 original size:29 final size:29
Alignment explanation
Indices: 44276713--44276771 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44276703 TTCCCATTTG
44276713 TTTCTCTTGAAAATAGACTCATTCAGGAT
1 TTTCTCTTGAAAATAGACTCATTCAGGAT
44276742 TTTCTCTTGAAAATAGACTCATTCAGGAT
1 TTTCTCTTGAAAATAGACTCATTCAGGAT
44276771 T
1 T
44276772 CTAAACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (29 bp):
TTTCTCTTGAAAATAGACTCATTCAGGAT
Found at i:44279202 original size:31 final size:31
Alignment explanation
Indices: 44279167--44279234 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
44279157 TTAACAACCC
**
44279167 AGTGACTTAAATAAAAACTTTTGAATAATTT
1 AGTGACTTAAATAAAAACTTTCAAATAATTT
* *
44279198 AGTGACTTAAATGAAAACTTTCAAATAGTTT
1 AGTGACTTAAATAAAAACTTTCAAATAATTT
44279229 AGTGAC
1 AGTGAC
44279235 CAACTTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCAAATAATTT
Found at i:44280248 original size:10 final size:9
Alignment explanation
Indices: 44280223--44280247 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44280213 GAAATTTGAT
44280223 AAAAAAAGA
1 AAAAAAAGA
44280232 AAAAAAAGA
1 AAAAAAAGA
44280241 AAAAAAA
1 AAAAAAA
44280248 ACACGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:44283102 original size:5 final size:5
Alignment explanation
Indices: 44283092--44283143 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
44283082 TGATGTGTAA
* *
44283092 AATAT AATAT AATA- AATAT AATTAA AATAT AATAT AATAT AATAT GATAT
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT
44283142 AA
1 AA
44283144 GCAAATAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.10
5 33 0.80
6 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:44283486 original size:8 final size:8
Alignment explanation
Indices: 44283475--44283517 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
44283465 TGGGGTGAAG
44283475 GAAAAAGA
1 GAAAAAGA
44283483 GAAAAAGA
1 GAAAAAGA
*
44283491 TAAACGAAG-
1 GAAA--AAGA
44283500 GAAAAAGA
1 GAAAAAGA
44283508 GAAAAAGA
1 GAAAAAGA
44283516 GA
1 GA
44283518 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 3 0.10
8 21 0.70
9 3 0.10
10 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (8 bp):
GAAAAAGA
Found at i:44284045 original size:109 final size:109
Alignment explanation
Indices: 44283854--44284053 Score: 357
Period size: 109 Copynumber: 1.8 Consensus size: 109
44283844 GGATTTATTT
44283854 TTATCTATGATAATTATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAAA
1 TTATCTATGATAATTATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAAA
*
44283919 TACTTTTTGGATGTCTTATAATATATATTTGTACGTCAACTTTA
66 TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
* *
44283963 TTATCTAT-ATTAATTATATTTTATTGATATAAAACAATTGCAGTTTCATTTAATTTGATCATAA
1 TTATCTATGA-TAATTATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAA
44284027 ATACTTTTTAGATGTCTTATAATATAT
65 ATACTTTTTAGATGTCTTATAATATAT
44284054 GTTCTTTGCT
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
108 1 0.01
109 86 0.99
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (109 bp):
TTATCTATGATAATTATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAAA
TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
Found at i:44297953 original size:21 final size:20
Alignment explanation
Indices: 44297925--44297963 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44297915 CAAAACTTGT
44297925 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
44297945 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
44297964 CAAAATACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:44302023 original size:24 final size:24
Alignment explanation
Indices: 44301970--44302015 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44301960 TCGACAACCC
*
44301970 ACTTTCTGGCTTTTCAACCTTTCG
1 ACTTTTTGGCTTTTCAACCTTTCG
*
44301994 ACTTTTTGGCTTTTCAGCCTTT
1 ACTTTTTGGCTTTTCAACCTTT
44302016 ACAGTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.13, T:0.50
Consensus pattern (24 bp):
ACTTTTTGGCTTTTCAACCTTTCG
Found at i:44305220 original size:39 final size:39
Alignment explanation
Indices: 44305177--44305448 Score: 463
Period size: 39 Copynumber: 7.0 Consensus size: 39
44305167 ATTATATTAT
* *
44305177 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
44305216 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
44305255 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
44305294 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
44305333 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
44305372 CAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
44305411 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
44305449 TCAGTGTCTT
Statistics
Matches: 219, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 219 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:44316111 original size:67 final size:64
Alignment explanation
Indices: 44316030--44316159 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 64
44316020 CTAGTCGGTT
* * * *
44316030 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACA
44316095 TA
63 TA
* *
44316097 TATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 TATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
44316160 CATAATGTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 29 0.51
67 28 0.49
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (64 bp):
TATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATA
Found at i:44316175 original size:21 final size:21
Alignment explanation
Indices: 44316151--44316219 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
44316141 CCATGCGACC
44316151 TAGCTACATCATAATGTCTCG
1 TAGCTACATCATAATGTCTCG
* * *
44316172 TAGCT-C-TC-TAGTGCACATCACC
1 TAGCTACATCATAATG----TCTCG
44316194 TAGCTACATCATAATGTCTCG
1 TAGCTACATCATAATGTCTCG
44316215 TAGCT
1 TAGCT
44316220 CTCTTGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 1 0.03
21 13 0.37
22 8 0.23
23 1 0.03
24 2 0.06
25 4 0.11
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (21 bp):
TAGCTACATCATAATGTCTCG
Found at i:44316770 original size:30 final size:30
Alignment explanation
Indices: 44316736--44316796 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44316726 TCCTTACCTC
44316736 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44316766 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44316796 A
1 A
44316797 GGCTAGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44320215 original size:27 final size:27
Alignment explanation
Indices: 44320198--44320375 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
44320188 ATATTAAGTC
44320198 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
44320225 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
44320253 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
44320280 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
44320307 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
44320334 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
44320361 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
44320376 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:44320337 original size:54 final size:54
Alignment explanation
Indices: 44320198--44320374 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
44320188 ATATTAAGTC
* * *
44320198 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
44320253 CGCACACTTAGTGC-TACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
44320307 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
44320361 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44320375 TGTACAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:44320364 original size:81 final size:82
Alignment explanation
Indices: 44320219--44320374 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
44320209 TGCTATATAA
* *
44320219 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
44320284 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
44320301 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
44320364 ACACTTAGTGC
65 ACACTTAGTGC
44320375 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:44328106 original size:27 final size:27
Alignment explanation
Indices: 44328076--44328250 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
44328066 TTAAGTCCGT
* * *
44328076 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
* *
44328103 ACACTTAGTGCCACATAATCAAACTCGC
1 ACACTTAGTGCTACATAGTC-AACTCGC
44328131 ACACTTAGTGCTACATAGTCAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
** * *
44328158 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
* **
44328185 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAACTCGC
* *
44328212 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
44328239 ACACTTAGTGCT
1 ACACTTAGTGCT
44328251 GTACAATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 102 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAACTCGC
Found at i:44328212 original size:54 final size:54
Alignment explanation
Indices: 44328076--44328250 Score: 226
Period size: 54 Copynumber: 3.2 Consensus size: 54
44328066 TTAAGTCCGT
* * * *
44328076 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAA-TCGC
* * *
44328131 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAATCGC
* ** *
44328185 ACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATAGTCAAATCGC
44328239 ACACTTAGTGCT
1 ACACTTAGTGCT
44328251 GTACAATTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.58
55 43 0.41
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAATCGC
Found at i:44328233 original size:81 final size:82
Alignment explanation
Indices: 44328094--44328249 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
44328084 TGCTATATAA
* *
44328094 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
44328159 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
44328176 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
44328239 ACACTTAGTGC
65 ACACTTAGTGC
44328250 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:44342485 original size:30 final size:29
Alignment explanation
Indices: 44342451--44342511 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
44342441 ATGAGTTGAA
44342451 AGCTTTGGCACTAAATGTGCAATTTAAACT
1 AGCTTTGGCACTAAATGTGCAATTT-AACT
* *
44342481 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAATGTGCAATTTAACT
44342510 AG
1 AG
44342512 TTTCGACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAATGTGCAATTTAACT
Found at i:44354710 original size:22 final size:22
Alignment explanation
Indices: 44354684--44354725 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44354674 GTGTCGAAGT
44354684 TGATGTATACTTTCATAATAGA
1 TGATGTATACTTTCATAATAGA
* *
44354706 TGATGTATATTTTGATAATA
1 TGATGTATACTTTCATAATA
44354726 TGTGAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
TGATGTATACTTTCATAATAGA
Found at i:44354932 original size:16 final size:15
Alignment explanation
Indices: 44354907--44354937 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
44354897 TTATGATGCG
44354907 TAATTATAATATAAT
1 TAATTATAATATAAT
44354922 TAATATATAATATAAT
1 TAAT-TATAATATAAT
44354938 AAGAGATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTATAATATAAT
Found at i:44361246 original size:10 final size:10
Alignment explanation
Indices: 44361231--44361332 Score: 68
Period size: 10 Copynumber: 9.8 Consensus size: 10
44361221 TAGATCAGTA
44361231 AAATAAAAAT
1 AAATAAAAAT
*
44361241 AAATAATATAAC
1 AAATAA-A-AAT
44361253 AAATAAAAAT
1 AAATAAAAAT
*
44361263 AAAT-AATAT
1 AAATAAAAAT
*
44361272 AAATAATAAT
1 AAATAAAAAT
44361282 AAA-AAATAAT
1 AAATAAA-AAT
44361292 -AATAAATAAT
1 AAATAAA-AAT
44361302 GAAATAATGAAAT
1 -AAATAA--AAAT
44361315 AAA-ATAAAAT
1 AAATA-AAAAT
*
44361325 AAAGAAAA
1 AAATAAAA
44361333 GGGTAAAAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
9 12 0.16
10 38 0.51
11 4 0.05
12 17 0.23
13 3 0.04
14 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.23
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:44361248 original size:13 final size:13
Alignment explanation
Indices: 44361230--44361309 Score: 67
Period size: 13 Copynumber: 5.9 Consensus size: 13
44361220 ATAGATCAGT
44361230 AAAATAAA-AATA
1 AAAATAAATAATA
*
44361242 AATAATATAACAAATA
1 AA-AATA-AA-TAATA
44361258 AAAATAAATAATA
1 AAAATAAATAATA
*
44361271 TAAAT-AATAATA
1 AAAATAAATAATA
44361283 AAAA-ATAATAATA
1 AAAATA-AATAATA
44361296 AATAATGAAATAAT
1 AA-AAT-AAATAAT
44361310 GAAATAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
12 12 0.21
13 21 0.38
14 6 0.11
15 10 0.18
16 7 0.12
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (13 bp):
AAAATAAATAATA
Found at i:44361258 original size:22 final size:21
Alignment explanation
Indices: 44361230--44361327 Score: 101
Period size: 22 Copynumber: 4.4 Consensus size: 21
44361220 ATAGATCAGT
44361230 AAAATAAAAATAAATAATATA
1 AAAATAAAAATAAATAATATA
44361251 ACAAATAAAAATAAATAATATA
1 A-AAATAAAAATAAATAATATA
44361273 AATAATAATAAA-AAATAATAATA
1 AA-AATAA-AAATAAATAAT-ATA
*
44361296 AATAATGAAATAATGAAATAAAAT-
1 AA-AAT-AAA-AAT-AAATAATATA
44361320 AAAATAAA
1 AAAATAAA
44361328 GAAAAGGGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 15
0.81 0.01 0.18
Matches are distributed among these distances:
21 2 0.03
22 36 0.53
23 16 0.24
24 6 0.09
25 2 0.03
26 6 0.09
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAATAAAAATAAATAATATA
Found at i:44368333 original size:46 final size:48
Alignment explanation
Indices: 44368244--44368513 Score: 217
Period size: 46 Copynumber: 5.7 Consensus size: 48
44368234 GTTGTGGTGA
* * *
44368244 GCTAGTGTAAGACCATGTCTGGGACCTGGCATCGGCATTGAGATGAAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAAT
*
44368292 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTAA-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AAT
* * *
44368338 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATC-GACTACGAGATG--T
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAAT
* *
44368382 G-TCAGTGTAAGACCATGTCTGGAACATGGCATCGG--TACAGATATGTGAGA-
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GAGA--TGA-AT
* * * **
44368432 GCTAGTGTAAGACCATGTCTGGGAAATGGCGTCGGCCTCAATTTCG-AT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GAAT
44368480 AG-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -GCT-AGTGTAAGACCATGTCTGGGACATGGCATC
44368514 AGCATTATAC
Statistics
Matches: 183, Mismatches: 19, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
44 10 0.05
45 18 0.10
46 58 0.32
47 16 0.09
48 16 0.09
49 30 0.16
50 32 0.17
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAAT
Found at i:44370906 original size:28 final size:28
Alignment explanation
Indices: 44370874--44370938 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
44370864 ATTTACTAGA
*
44370874 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
44370902 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
44370930 ATACCCCTA
1 ATACCCCTA
44370939 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:44371085 original size:28 final size:29
Alignment explanation
Indices: 44371054--44371134 Score: 130
Period size: 28 Copynumber: 2.8 Consensus size: 29
44371044 CTGGTTGCTA
44371054 TGCCACAAATTATCTGTTCTGGTGGC-CC
1 TGCCACAAATTATCTGTTCTGGTGGCACC
44371082 TGCCACAAATTATCTGTTCTGGTGGCACC
1 TGCCACAAATTATCTGTTCTGGTGGCACC
*
44371111 -GCCACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
44371135 ACTCTGTCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
28 41 0.82
29 9 0.18
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (29 bp):
TGCCACAAATTATCTGTTCTGGTGGCACC
Found at i:44371622 original size:19 final size:19
Alignment explanation
Indices: 44371598--44371636 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44371588 TTTTAATTAT
* *
44371598 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
44371617 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
44371636 T
1 T
44371637 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:44377724 original size:46 final size:44
Alignment explanation
Indices: 44377641--44377755 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
44377631 GACGAGAGCT
* * *
44377641 AGTGTAAGACATGTTTGGGACATACATTTGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATTAGACTCGAGATGT--GCC
*
44377687 GGTGTAAGACATGTTTGGGACATGCA-TAGACTGCGAGATGTGCC
1 AGTGTAAGACATGTTTGGGACATGCATTAGACT-CGAGATGTGCC
* *
44377731 AGTGTAAGACCATGTCTGAGACATG
1 AGTGTAAGA-CATGTTTGGGACATG
44377756 GCATCAGTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 11 0.18
45 17 0.28
46 32 0.53
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATTAGACTCGAGATGTGCC
Found at i:44382528 original size:47 final size:47
Alignment explanation
Indices: 44382477--44382581 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
44382467 TAGTATTAAT
*
44382477 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
44382524 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
44382571 AATGTGATAAG
1 TATGTGATAAG
44382582 TCCTGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:44392989 original size:50 final size:50
Alignment explanation
Indices: 44392886--44393221 Score: 286
Period size: 50 Copynumber: 6.7 Consensus size: 50
44392876 ACCGAAGCTC
* * * * * *
44392886 TCTGGTACGCATAGTAGCCTGCACTTGGTACTACATATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * *
44392936 TCTAGTACACGTAGTAGCCTACACTTAGTACTAGACATGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
** * ** *
44392986 TCTAATACACGTAGTAGCCTGCATTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * *
44393038 -CGGGTACACATAGTAGCCTGCACTTAGTACTACATCATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACA-CACGTGACCTATCAA
* * * *
44393088 TCGGGTACACGTAGTAGCCTGCACTTAG---TACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * ** * *
44393135 TCTGGTAAATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTATCAA
* * *
44393186 TCGGGTACA-ATAGTAGCCTGTACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
44393222 TGTGTTCTCA
Statistics
Matches: 233, Mismatches: 45, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
47 35 0.15
48 4 0.02
50 116 0.50
51 71 0.30
52 7 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:44393173 original size:149 final size:150
Alignment explanation
Indices: 44392889--44393223 Score: 473
Period size: 149 Copynumber: 2.2 Consensus size: 150
44392879 GAAGCTCTCT
* * *
44392889 GGTACGCATAGTAGCCTGCACTTGGTACTACAT-ATGCGACCTATCAATCTAGTACACGTAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACATCATGCGACCTATCAATCGAGTACACGTAGTAG
* * * *
44392953 CCTACACTTAGTACTAGACATGTGACTTATCCATCTAATACACGTAGTAGCCTGCATTTAGTACT
66 CCTACACTTAGTAC-A-ACACGTGACTTAACCATCTAATAAACGTAGTAGCCTGCACTTAGTACT
*
44393018 ACACACGTGATC-AAAGTTAACG
129 ACACACGTGATCGAAA-CTAACG
*
44393040 GGTACACATAGTAGCCTGCACTTAGTACTACATCATGCGACCTATCAATCGGGTACACGTAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACATCATGCGACCTATCAATCGAGTACACGTAGTAG
* ** *
44393105 CCTGCACTTAGTAC-ACACGTGACTTAACCATCTGGTAAATGTAGTAGCCTGCACTTAGTACTAC
66 CCTACACTTAGTACAACACGTGACTTAACCATCTAATAAACGTAGTAGCCTGCACTTAGTACTAC
*
44393169 ACACGTGATCGAAACTATCG
131 ACACGTGATCGAAACTAACG
*
44393189 GGTACA-ATAGTAGCCTGTACTTAGTACTACA-CATG
1 GGTACACATAGTAGCCTGCACTTAGTACTACATCATG
44393224 TGTTCTCACA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
147 4 0.02
148 24 0.14
149 63 0.38
150 3 0.02
151 31 0.19
152 42 0.25
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (150 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACATCATGCGACCTATCAATCGAGTACACGTAGTAG
CCTACACTTAGTACAACACGTGACTTAACCATCTAATAAACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATCGAAACTAACG
Found at i:44398529 original size:27 final size:27
Alignment explanation
Indices: 44398489--44398546 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
44398479 ACTACTGTGC
**
44398489 TAGTGGCTTTGCCACGTATT-CTGATAT
1 TAGTGGCTACGCCACGT-TTACTGATAT
*
44398516 TAGTGGCTACGCCACGTTTACTGTTAT
1 TAGTGGCTACGCCACGTTTACTGATAT
44398543 TAGT
1 TAGT
44398547 AGCTTTGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
TAGTGGCTACGCCACGTTTACTGATAT
Found at i:44420607 original size:40 final size:39
Alignment explanation
Indices: 44420536--44420740 Score: 297
Period size: 40 Copynumber: 5.2 Consensus size: 39
44420526 AAACCAAGTA
* * *
44420536 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
*
44420575 CCTTCGGGACTTAGCCCGAATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
44420615 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
44420655 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
*
44420695 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
44420735 CCTTCG
1 CCTTCG
44420741 TTATCATCCG
Statistics
Matches: 155, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 15 0.10
40 139 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:44424621 original size:30 final size:30
Alignment explanation
Indices: 44424587--44424647 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44424577 TCCTTAACTC
44424587 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44424617 AAACTTTTGCACATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44424647 A
1 A
44424648 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44441478 original size:10 final size:10
Alignment explanation
Indices: 44441465--44441489 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44441455 TGGGCCTCAA
44441465 TGGGCTGAAG
1 TGGGCTGAAG
44441475 TGGGCTGAAG
1 TGGGCTGAAG
44441485 TGGGC
1 TGGGC
44441490 CCAATGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.52, T:0.20
Consensus pattern (10 bp):
TGGGCTGAAG
Found at i:44441691 original size:27 final size:27
Alignment explanation
Indices: 44441661--44441831 Score: 93
Period size: 27 Copynumber: 6.3 Consensus size: 27
44441651 CAATAGGACC
*
44441661 GAAATAGCCC-CGACTTGTAAAATTATT
1 GAAATA-CCCTCGACTTGTAAAATTACT
**
44441688 GAAATACCCTCGGGTTGTAAAATTACT
1 GAAATACCCTCGACTTGTAAAATTACT
* * * * *
44441715 GAAATATCCAT-AATTTGTGAAATTACC
1 GAAATA-CCCTCGACTTGTAAAATTACT
* * * * * *
44441742 GAAATATCCTCTATTTTTGAAATTACC
1 GAAATACCCTCGACTTGTAAAATTACT
*
44441769 AAAATACCC-CTGACTTGTAAAATTA-T
1 GAAATACCCTC-GACTTGTAAAATTACT
* *
44441795 CGAAATACCCTTGTA-GTGTAAAATTACCT
1 -GAAATACCCTCG-ACTTGTAAAATTA-CT
44441824 -AAATACCC
1 GAAATACCC
44441832 CTATAGGGTA
Statistics
Matches: 112, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.05
27 101 0.90
28 4 0.04
29 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
GAAATACCCTCGACTTGTAAAATTACT
Found at i:44441819 original size:54 final size:54
Alignment explanation
Indices: 44441662--44441833 Score: 143
Period size: 54 Copynumber: 3.2 Consensus size: 54
44441652 AATAGGACCG
* * * **
44441662 AAATAGCCCC-GACTTGTAAAATTATTGAAATACCCTCG-GGTTGTAAAATTACTG
1 AAATA-CCCCTGACTTGTAAAATTATCGAAATACCCTTGTAG-TGTAAAATTACCA
* * * * * * * * * * *
44441716 AAATATCCATAATTTGTGAAATTACCGAAATATCC-TCTATTTTTGAAATTACCA
1 AAATACCCCTGACTTGTAAAATTATCGAAATACCCTTGTA-GTGTAAAATTACCA
*
44441770 AAATACCCCTGACTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCT
1 AAATACCCCTGACTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCA
44441824 AAATACCCCT
1 AAATACCCCT
44441834 ATAGGGTAAA
Statistics
Matches: 86, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
53 2 0.02
54 81 0.94
55 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (54 bp):
AAATACCCCTGACTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCA
Found at i:44441846 original size:28 final size:27
Alignment explanation
Indices: 44441785--44441844 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
44441775 CCCCTGACTT
* * * *
44441785 GTAAAATTATCGAAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCCTATAGG
*
44441812 GTAAAATTACCTAAATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTATAGG
44441839 GTAAAA
1 GTAAAA
44441845 ATGACTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAGG
Found at i:44442310 original size:27 final size:27
Alignment explanation
Indices: 44442280--44442342 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
44442270 CCAGTGGCTA
* *
44442280 TGTGCCTATCATATTTATCGATGACTC
1 TGTGCCGATCATATTTATCCATGACTC
* * *
44442307 TGTGTCGATCATATTTATCCATGGCTG
1 TGTGCCGATCATATTTATCCATGACTC
44442334 TGTGCCGAT
1 TGTGCCGAT
44442343 TTTCATTGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
TGTGCCGATCATATTTATCCATGACTC
Found at i:44443332 original size:27 final size:27
Alignment explanation
Indices: 44443301--44443352 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
44443291 CAATAGGACC
44443301 GAAATAGCCC-CGACTTGTAAAATTATT
1 GAAATA-CCCTCGACTTGTAAAATTATT
**
44443328 GAAATACCCTCGGGTTGTAAAATTA
1 GAAATACCCTCGACTTGTAAAATTA
44443353 CCGAATCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
GAAATACCCTCGACTTGTAAAATTATT
Found at i:44443372 original size:27 final size:27
Alignment explanation
Indices: 44443342--44443473 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
44443332 TACCCTCGGG
* *
44443342 TTGTAAAATTACC-GAATCACCCCTAAT
1 TTGTAAAATTACCAAAAT-ACCCCTGAT
* * *
44443369 TTGTGAAATTACCAAAATATCCTTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
44443396 TTTTGAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
44443423 TTGTAAAATTATCGAAATACCCTTG-T
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
44443449 AGTGTAAAATTACCGAAATACCCCT
1 -TTGTAAAATTACCAAAATACCCCT
44443474 ATAGGGTGAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.95
28 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:44443387 original size:54 final size:53
Alignment explanation
Indices: 44443315--44443474 Score: 151
Period size: 54 Copynumber: 3.0 Consensus size: 53
44443305 TAGCCCCGAC
*** * *
44443315 TTGTAAAATTATTGAAATACCCTCGGGTTGTAAAATTACCGAATCACCCCTAAT
1 TTGTAAAATTACCAAAATACCCTTGAGTTGTAAAATTACCGAAT-ACCCCTAAT
* * * * * * *
44443369 TTGTGAAATTACCAAAATATCCTTGATTTTTGAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGAGTTGTAAAATTACC-GAATACCCCTAAT
* *
44443423 TTGTAAAATTATCGAAATACCCTTGTAG-TGTAAAATTACCGAAATACCCCTA
1 TTGTAAAATTACCAAAATACCCTTG-AGTTGTAAAATTACCG-AATACCCCTA
44443475 TAGGGTGAAA
Statistics
Matches: 82, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
54 78 0.95
55 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCTTGAGTTGTAAAATTACCGAATACCCCTAAT
Found at i:44443981 original size:27 final size:27
Alignment explanation
Indices: 44443927--44443982 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
44443917 CTTTATGCCT
* * * *
44443927 ATCATATTTATCGATGATTCTGTGTTG
1 ATCATATTTATCCATGACTATGTATTG
*
44443954 ATCATATTTATCCATGGCTATGTATTG
1 ATCATATTTATCCATGACTATGTATTG
44443981 AT
1 AT
44443983 TTTCATTGTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.46
Consensus pattern (27 bp):
ATCATATTTATCCATGACTATGTATTG
Found at i:44445010 original size:27 final size:27
Alignment explanation
Indices: 44444954--44445011 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
44444944 TACCCCCGAC
* **
44444954 TTGTAAAATTATTGAAATACCCATGGT
1 TTGTAAAATTATTGAAACACCCATAAT
*
44444981 TTGTAAAATT-TCTGAAACACCCCTAAT
1 TTGTAAAATTAT-TGAAACACCCATAAT
44445008 TTGT
1 TTGT
44445012 GGAATAACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (27 bp):
TTGTAAAATTATTGAAACACCCATAAT
Found at i:44445121 original size:27 final size:27
Alignment explanation
Indices: 44445064--44445123 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
44445054 CCTCTGATTT
* * * *
44445064 GTAAAATTATCGAAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCCTATAGG
44445091 GTAAAATTACCGAAATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTATAGG
44445118 GTAAAA
1 GTAAAA
44445124 AAGATTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAGG
Found at i:44445589 original size:27 final size:27
Alignment explanation
Indices: 44445559--44445621 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
44445549 CCATTGGCTA
* *
44445559 TGTGCCTATCATATTTATCGATGACTC
1 TGTGCCGATCATATTTATCCATGACTC
* * *
44445586 TGTGTCGATCATATTTATCCATGGCTG
1 TGTGCCGATCATATTTATCCATGACTC
44445613 TGTGCCGAT
1 TGTGCCGAT
44445622 TTTCATTGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
TGTGCCGATCATATTTATCCATGACTC
Found at i:44446626 original size:27 final size:27
Alignment explanation
Indices: 44446582--44446642 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
44446572 CAATAGGACC
*
44446582 GAAATACACCCGACTTGTAAAATTAT-T
1 GAAATACACACGACTTGTAAAATT-TCT
**
44446609 GAAATACACACGGTTTGTAAAATTTCT
1 GAAATACACACGACTTGTAAAATTTCT
44446636 GAAATAC
1 GAAATAC
44446643 CCCTAATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (27 bp):
GAAATACACACGACTTGTAAAATTTCT
Found at i:44446652 original size:27 final size:27
Alignment explanation
Indices: 44446596--44446754 Score: 89
Period size: 27 Copynumber: 5.9 Consensus size: 27
44446586 TACACCCGAC
* * **
44446596 TTGTAAAATTATTGAAATACACAC-GGT
1 TTGTAAAATTACTGAAATAC-CCCTAAT
*
44446623 TTGTAAAATTTCTGAAATACCCCTAAT
1 TTGTAAAATTACTGAAATACCCCTAAT
*
44446650 TTG-AGGAATTACTGAAATA-CCCTCAAT
1 TTGTA-AAATTACTGAAATACCCCT-AAT
** *
44446677 TTGTGAAAA--ACCAAAATACCCCTGAT
1 TTGT-AAAATTACTGAAATACCCCTAAT
* **
44446703 TTGTAAAATTA-TCGAAATA-CCTTTGT
1 TTGTAAAATTACT-GAAATACCCCTAAT
* *
44446729 GGTGTAAAATTACCGAAATACCCCTA
1 -TTGTAAAATTACTGAAATACCCCTA
44446755 TAGGGTAAAA
Statistics
Matches: 100, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
25 4 0.04
26 24 0.24
27 66 0.66
28 5 0.05
29 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCCTAAT
Found at i:44446762 original size:27 final size:27
Alignment explanation
Indices: 44446690--44446765 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
44446680 TGAAAAACCA
* *
44446690 AAATACCCCTGAT-TTGTAAAATTATCG
1 AAATACCCCT-ATGGTGTAAAATTACCG
** *
44446717 AAATACCTTTGTGGTGTAAAATTACCG
1 AAATACCCCTATGGTGTAAAATTACCG
44446744 AAATACCCCTATAGG-GTAAAAT
1 AAATACCCCTAT-GGTGTAAAAT
44446766 GACTGTTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.92
28 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (27 bp):
AAATACCCCTATGGTGTAAAATTACCG
Found at i:44447228 original size:27 final size:27
Alignment explanation
Indices: 44447198--44447260 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
44447188 CCATTGGCTA
* * *
44447198 TGTGCCTATCATTTTTATCGATGACTC
1 TGTGCCGATCATATTTATCCATGACTC
* * *
44447225 TGTGTCGATCATATTTATCCATGGCTG
1 TGTGCCGATCATATTTATCCATGACTC
44447252 TGTGCCGAT
1 TGTGCCGAT
44447261 TTTCATTGTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (27 bp):
TGTGCCGATCATATTTATCCATGACTC
Found at i:44448512 original size:27 final size:27
Alignment explanation
Indices: 44448479--44448543 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
44448469 TTACCCTTGG
* *
44448479 CTATGTGCCTATCAAATTTATCGATGA
1 CTATGTGCCGATCAAATTTATCCATGA
* * * *
44448506 CTCTGTGTCGATCATATTTATCCATGG
1 CTATGTGCCGATCAAATTTATCCATGA
44448533 CTATGTGCCGA
1 CTATGTGCCGA
44448544 ACTTATTATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (27 bp):
CTATGTGCCGATCAAATTTATCCATGA
Found at i:44453598 original size:40 final size:40
Alignment explanation
Indices: 44453543--44453718 Score: 316
Period size: 40 Copynumber: 4.4 Consensus size: 40
44453533 ATAGTAACTC
*
44453543 GACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGG
1 GACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
*
44453583 GACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
1 GACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
*
44453623 GACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGG
1 GACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
*
44453663 GACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGG
1 GACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
44453703 GACTTAGCCCGGTTAT
1 GACTTAGCCCGGTTAT
44453719 CAATCCGAAT
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
Found at i:44461612 original size:40 final size:40
Alignment explanation
Indices: 44461531--44461791 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
44461521 AAACCAAGTA
** * *
44461531 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
44461570 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44461610 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44461650 CCTTC-GGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44461689 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
44461729 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
44461769 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
44461792 CAATCCGAAT
Statistics
Matches: 206, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 50 0.24
40 156 0.76
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:44461666 original size:79 final size:79
Alignment explanation
Indices: 44461531--44461787 Score: 392
Period size: 79 Copynumber: 3.2 Consensus size: 79
44461521 AAACCAAGTA
** *
44461531 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATA
*
44461594 GTAACTCGCACAATTG
64 GTAACTCGCACAAATG
* * *
44461610 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGACTTGGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
44461675 AACTCGCACAAATG
66 AACTCGCACAAATG
*
44461689 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG-GACTTAGCCCGGTTATAG
*
44461754 TAACTCGCATAAATG
65 TAACTCGCACAAATG
44461769 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44461788 TTATCAATCC
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
79 89 0.55
80 74 0.45
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:44461742 original size:119 final size:120
Alignment explanation
Indices: 44461531--44461791 Score: 393
Period size: 119 Copynumber: 2.2 Consensus size: 120
44461521 AAACCAAGTA
** * * *
44461531 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* * * *
44461594 GTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
65 GTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
44461650 CCTTC-GGACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
44461714 TAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCATAAATG
66 TAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
44461769 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
44461792 CAATCCGAAT
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
118 6 0.05
119 105 0.83
120 16 0.13
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44467036 original size:44 final size:44
Alignment explanation
Indices: 44466961--44467055 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
44466951 TTCAATGAAC
*
44466961 TCGCACACTTAGTGCCAATTTAATTAGCCGAAGC-TATAATAT-TA
1 TCGCACACTTAGTGCCAATTTAATTAACCGAA-CTTAT-ATATGTA
*
44467005 TCGCACACTTAGTGCC-ATTTCATTAAACCGAACTTATATATGTA
1 TCGCACACTTAGTGCCAATTTAATT-AACCGAACTTATATATGTA
44467049 TCGCACA
1 TCGCACA
44467056 TAATGCCCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 12 0.26
44 34 0.74
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.32
Consensus pattern (44 bp):
TCGCACACTTAGTGCCAATTTAATTAACCGAACTTATATATGTA
Found at i:44470886 original size:30 final size:30
Alignment explanation
Indices: 44470852--44470911 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
44470842 TGTACCTATC
*
44470852 TATTTTGATGGATGAAA-TTGAGATATTAAT
1 TATTTTGATGAAT-AAAGTTGAGATATTAAT
*
44470882 TATTTTGTTGAATAAATGTTGAGATATTAA
1 TATTTTGATGAATAAA-GTTGAGATATTAA
44470912 ATGAAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 11 0.42
31 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (30 bp):
TATTTTGATGAATAAAGTTGAGATATTAAT
Found at i:44471002 original size:33 final size:33
Alignment explanation
Indices: 44470946--44471020 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
44470936 TAAGTTGCCA
* *
44470946 AATATGACCATAGTCGGGCTATGGCA-ATCGAAT
1 AATAAGACCATAGCCGGGCTATGGCATA-CGAAT
*
44470979 AATAAGACCATAGCCGGGTTATGGCATACGAAT
1 AATAAGACCATAGCCGGGCTATGGCATACGAAT
*
44471012 GA-AAGACCA
1 AATAAGACCA
44471021 CGACAAGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 7 0.19
33 29 0.78
34 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (33 bp):
AATAAGACCATAGCCGGGCTATGGCATACGAAT
Found at i:44479019 original size:31 final size:31
Alignment explanation
Indices: 44478946--44479021 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
44478936 GTCCAAAAGT
* *
44478946 CACACAGGCGTGTGTGACCACACGGCCTACC
1 CACACGGGCGTGTGTGACCACACAGCCTACC
* *
44478977 CATACGAGCGTGTGTGACCACACAGCCTACC
1 CACACGGGCGTGTGTGACCACACAGCCTACC
*
44479008 CACATGGGCGTGTG
1 CACACGGGCGTGTG
44479022 ACTGTCCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (31 bp):
CACACGGGCGTGTGTGACCACACAGCCTACC
Found at i:44491418 original size:31 final size:31
Alignment explanation
Indices: 44491380--44491445 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
44491370 TTATTTCATA
*
44491380 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
44491411 TTTCATATTTCATATTACTAGGCTGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
44491442 TTTC
1 TTTC
44491446 TGTACACGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:44491701 original size:24 final size:24
Alignment explanation
Indices: 44491637--44491777 Score: 182
Period size: 23 Copynumber: 6.0 Consensus size: 24
44491627 GCTTTATCAT
*
44491637 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
44491662 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
44491685 ATAATTGGGGCATAAGCCTTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44491709 ATAACTGGGGCATAAGCCC-TTGA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
44491732 ATAACTGGCGCATCAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44491755 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44491778 GCACTTCCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
23 57 0.56
24 37 0.36
25 8 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44491735 original size:47 final size:47
Alignment explanation
Indices: 44491651--44491775 Score: 173
Period size: 47 Copynumber: 2.7 Consensus size: 47
44491641 CTGGAGGCCT
* * *
44491651 AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTAATAATTGGGGCATA
1 AGCCT-TTTTAATAACTGGGGCATAAGCCC-TTGAATAACTGGCGCATA
*
44491699 AGCCTTTTTAATAACTGGGGCATAAGCCCTTGAATAACTGGCGCATC
1 AGCCTTTTTAATAACTGGGGCATAAGCCCTTGAATAACTGGCGCATA
*
44491746 AGCC-CTTTAATAACTGGGGCATAAGCCCTT
1 AGCCTTTTTAATAACTGGGGCATAAGCCCTT
44491776 TTGCACTTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
46 25 0.35
47 35 0.49
48 11 0.15
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (47 bp):
AGCCTTTTTAATAACTGGGGCATAAGCCCTTGAATAACTGGCGCATA
Found at i:44491893 original size:20 final size:20
Alignment explanation
Indices: 44491827--44491885 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
44491817 TTATGAATAC
44491827 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44491847 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
44491867 TTCATGTGCATATCATACA
1 ATCATGTGCATATCATACA
44491886 GACCATGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44494617 original size:43 final size:43
Alignment explanation
Indices: 44494554--44494716 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
44494544 AGCTCGCACA
* * * *
44494554 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCTCA-TATTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAGTA-CG
* * * *
44494596 ATGCCAATGTCCCAGACATGGTCTTCCATGAAAT-TGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAGT-ACG
* * * * *
44494639 GTGCCAATGTCCCAAACATGGTCATACATGTAATCACAGTACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAGTACG
*
44494682 ATGCCAATGTCCCATACATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
44494717 ACATCTCGGT
Statistics
Matches: 98, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 88 0.90
44 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAGTACG
Found at i:44501640 original size:42 final size:42
Alignment explanation
Indices: 44501580--44501660 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
44501570 TGACCTAACC
44501580 GTGTGTCACACACAACTGAGACACATGCCTGTGTCTCTGACA
1 GTGTGTCACACACAACTGAGACACATGCCTGTGTCTCTGACA
* *
44501622 GTGTGTCACACTCGACTGAGACACATGCCTGTGTCTCTG
1 GTGTGTCACACACAACTGAGACACATGCCTGTGTCTCTG
44501661 CCCATGTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (42 bp):
GTGTGTCACACACAACTGAGACACATGCCTGTGTCTCTGACA
Found at i:44530472 original size:40 final size:40
Alignment explanation
Indices: 44530413--44530670 Score: 365
Period size: 40 Copynumber: 6.5 Consensus size: 40
44530403 GGATTGATAA
*
44530413 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44530453 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44530493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
44530533 CCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
44530573 CCGGGCTAAGTCCCAAAGGCAATTGTGTGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
44530613 CCGGGCTAAGTCCCGAAGGTATTTGAGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
44530653 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44530671 TACTTGGTTT
Statistics
Matches: 196, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
39 14 0.07
40 182 0.93
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44538754 original size:39 final size:40
Alignment explanation
Indices: 44538513--44538773 Score: 386
Period size: 40 Copynumber: 6.6 Consensus size: 40
44538503 ATTCGGATTG
44538513 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44538553 ATATCCGGGCTAAGTCCCGAAGGCATTTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACT
*
44538594 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44538634 ATAACCGGGC-AAGTCCCGAAGGCAATTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44538673 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44538713 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
44538752 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
44538774 TACTTGGTTT
Statistics
Matches: 205, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 8 0.04
39 68 0.33
40 90 0.44
41 39 0.19
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44538754 original size:79 final size:80
Alignment explanation
Indices: 44538513--44538773 Score: 379
Period size: 79 Copynumber: 3.3 Consensus size: 80
44538503 ATTCGGATTG
*
44538513 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
44538578 TTTTGTA-CGAGTTACT
66 -TTTG-AGCGAGTTACT
*
44538594 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGC-AAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* * *
44538658 ATTGTGCAAGTTACT
66 TTTGAGCGAGTTACT
*
44538673 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
44538737 TTTGAGCGAG-TAGCT
66 TTTGAGCGAGTTA-CT
* **
44538752 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
44538774 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
78 16 0.10
79 82 0.50
80 18 0.11
81 48 0.29
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
TTTGAGCGAGTTACT
Found at i:44542140 original size:48 final size:47
Alignment explanation
Indices: 44542007--44542355 Score: 451
Period size: 48 Copynumber: 7.3 Consensus size: 47
44541997 CAGCCAAGAC
44542007 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44542054 AGTGTTTAACTTATGTGTGATAAGGACTAGATGGCCGATGTGATGAATGTGAA
1 AGTG--T-A--TATATGTGATAAGGCCTA-ATGGCCGATGTGATGAATGTGAA
* *
44542107 AGTGTATATATGTGATAAGGCCTACTAGCCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAAT-GGCCGATGTGATGAATGTGAA
*
44542155 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATG-TGATGAATGTGAA
* *
44542203 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT---
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44542247 A---TA-ATGTGTGATAAGGCCTAATGGCCTGATGTGATGAGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCC-GATGTGAT--GAATGTGAA
* *
44542293 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGAAGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44542340 AGTGTGATATATGTGA
1 AGTGT-ATATATGTGA
44542356 CAGGCCGAGT
Statistics
Matches: 268, Mismatches: 15, Indels: 37
0.84 0.05 0.12
Matches are distributed among these distances:
40 22 0.08
41 10 0.04
43 6 0.02
44 1 0.00
46 1 0.00
47 36 0.13
48 115 0.43
49 10 0.04
50 23 0.09
51 1 0.00
52 16 0.06
53 27 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44542255 original size:40 final size:40
Alignment explanation
Indices: 44542205--44542283 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
44542195 AATGTGAAAG
44542205 TGTATATGTGTGATAAGGCCTAATAGCC-GATGTGATGAA
1 TGTATATGTGTGATAAGGCCTAATAGCCTGATGTGATGAA
*
44542244 TGTATAATGTGTGATAAGGCCTAATGGCCTGATGTGATGA
1 TGTAT-ATGTGTGATAAGGCCTAATAGCCTGATGTGATGA
44542284 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 5 0.14
40 22 0.59
41 10 0.27
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (40 bp):
TGTATATGTGTGATAAGGCCTAATAGCCTGATGTGATGAA
Found at i:44542317 original size:90 final size:88
Alignment explanation
Indices: 44542148--44542348 Score: 286
Period size: 90 Copynumber: 2.3 Consensus size: 88
44542138 GATGTGATGA
*
44542148 ATGTGAA-AGTGTAT-ATGTGTGATAAGGCCTAATGGCCGATGTTGATGAATGTGAAAGTGTATA
1 ATGTGAAGAATGTATAATGTGTGATAAGGCCTAATGGCCGATGTTGATGAATGTGAAAGTGTATA
* *
44542211 TGTGTGATAAGGCCTAATAGCCG
66 TATGTAATAAGGCCTAATAGCCG
*
44542234 ATGTGATGAATGTATAATGTGTGATAAGGCCTAATGGCCTGATG-TGATGAGAATGTGAAAGTGT
1 ATGTGAAGAATGTATAATGTGTGATAAGGCCTAATGGCC-GATGTTGAT--GAATGTGAAAGTGT
*
44542298 ATATATGTAATAAGGCCTAATGGCCG
63 ATATATGTAATAAGGCCTAATAGCCG
44542324 ATGTGAAGAATGTGA-AA-GTGTGATA
1 ATGTGAAGAATGT-ATAATGTGTGATA
44542349 TATGTGACAG
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
86 6 0.06
87 6 0.06
88 27 0.26
89 12 0.12
90 51 0.50
91 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (88 bp):
ATGTGAAGAATGTATAATGTGTGATAAGGCCTAATGGCCGATGTTGATGAATGTGAAAGTGTATA
TATGTAATAAGGCCTAATAGCCG
Found at i:44542336 original size:47 final size:50
Alignment explanation
Indices: 44542257--44542353 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
44542247 ATAATGTGTG
44542257 ATAAGGCCTAATGGCCTGATGTGATGAGAATGTGAAAGTGT-ATATATGTA
1 ATAAGGCCTAATGGCCTGATGTGA-GAGAATGTGAAAGTGTGATATATGTA
44542307 ATAAGGCCTAATGGCC-GATGTGA-AGAATGTGAAAGTGTGATATATGT
1 ATAAGGCCTAATGGCCTGATGTGAGAGAATGTGAAAGTGTGATATATGT
44542354 GACAGGCCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
47 15 0.33
48 8 0.17
49 7 0.15
50 16 0.35
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (50 bp):
ATAAGGCCTAATGGCCTGATGTGAGAGAATGTGAAAGTGTGATATATGTA
Found at i:44544496 original size:41 final size:42
Alignment explanation
Indices: 44544461--44544565 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 42
44544451 GGTTGGTTTC
44544461 AGCACTAAGTGTGCGGGCAATAAGTG-T-TCACGGTTGGAGATT
1 AGCACTAAGTGTGCGGGC-ATAAGTGTTCTCACGGTT-GAGATT
*
44544503 GGCACTAAGTGTGCGGGCATAAGTGTTCTCACGGTTGTGAGATT
1 AGCACTAAGTGTGCGGGCATAAGTGTTCTCACGG-T-TGAGATT
*
44544547 GGCACTAAGTGTGGCGGGC
1 AGCACTAAGTGT-GCGGGC
44544566 TTGAAATGCA
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
41 7 0.12
42 18 0.32
43 6 0.11
44 19 0.33
45 7 0.12
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (42 bp):
AGCACTAAGTGTGCGGGCATAAGTGTTCTCACGGTTGAGATT
Found at i:44544509 original size:42 final size:44
Alignment explanation
Indices: 44544462--44544565 Score: 169
Period size: 42 Copynumber: 2.4 Consensus size: 44
44544452 GTTGGTTTCA
44544462 GCACTAAGTGTGCGGGCAATAAGTG-T-TCACGGTTG-GAGATTG
1 GCACTAAGTGTGCGGGC-ATAAGTGTTCTCACGGTTGTGAGATTG
44544504 GCACTAAGTGTGCGGGCATAAGTGTTCTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCATAAGTGTTCTCACGGTTGTGAGATTG
44544548 GCACTAAGTGTGGCGGGC
1 GCACTAAGTGT-GCGGGC
44544566 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
41 7 0.12
42 18 0.31
43 9 0.16
44 18 0.31
45 6 0.10
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (44 bp):
GCACTAAGTGTGCGGGCATAAGTGTTCTCACGGTTGTGAGATTG
Found at i:44545090 original size:41 final size:40
Alignment explanation
Indices: 44545009--44545156 Score: 201
Period size: 41 Copynumber: 3.7 Consensus size: 40
44544999 GTTACTAATC
*
44545009 CCGGGC-AAGTCCCGAAGAGCATTCATGCTAGCGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
*
44545048 CCGGGCTAAGTCTCGAAGAGCATTCAATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTC-ATGCTAGTGATGTAT
** *
44545089 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATA-
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
44545128 CCGTGCTAAATCCCGAAGAGCAATCATGC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGC
44545157 GGTGACGTGT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 30 0.31
40 29 0.30
41 37 0.39
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:44548006 original size:47 final size:46
Alignment explanation
Indices: 44547955--44548125 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
44547945 TGGTTGAGCA
*
44547955 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCATATGGATGCGAA-G
* *** * * *
44548002 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCATATG-GA-T-GCGAAG
* * *
44548049 TCCGAACTCGTGGGAGTTGAGTCCGAGTTCA-CTTATGGATGCAAACG
1 TCCGAACTCGT-TGAGTTGAGTCCGAGTTCACCATATGGATGCGAA-G
* *
44548096 CCCG-AGTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
44548126 TTAGGGGCGG
Statistics
Matches: 96, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
44 1 0.01
45 20 0.21
46 6 0.06
47 48 0.50
48 17 0.18
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCATATGGATGCGAAG
Found at i:44555164 original size:46 final size:46
Alignment explanation
Indices: 44555018--44555187 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
44555008 GGTTGAGCAT
* *
44555018 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
44555063 CCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44555107 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44555155 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44555188 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 9 0.09
45 20 0.19
46 52 0.50
47 7 0.07
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44556084 original size:18 final size:20
Alignment explanation
Indices: 44556049--44556089 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
44556039 CTTTTCTGAC
*
44556049 TTTAAAAATTCATAATAA-T
1 TTTAAAAATTAATAATAAGT
*
44556068 TTTAAAAA-TAATTATAAGT
1 TTTAAAAATTAATAATAAGT
44556087 TTT
1 TTT
44556090 TATTTATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTAAAAATTAATAATAAGT
Found at i:44567165 original size:9 final size:9
Alignment explanation
Indices: 44567151--44567177 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44567141 TAAGACAGAG
44567151 GATGAGCAT
1 GATGAGCAT
44567160 GATGAGCAT
1 GATGAGCAT
44567169 GATGAGCAT
1 GATGAGCAT
44567178 CTCAGAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (9 bp):
GATGAGCAT
Found at i:44570741 original size:263 final size:264
Alignment explanation
Indices: 44570273--44570796 Score: 969
Period size: 263 Copynumber: 2.0 Consensus size: 264
44570263 AAATACTTCT
44570273 CAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACATAAAC
1 CAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACATAAAC
*
44570338 CAAATGGCATGCGTCTAAATGAAAATGTACCATACGGGCAGGTGAATGTTGTCTTGTGTTGATCT
66 CAAATGGAATGCGTCTAAATGAAAATGTACCATACGGGCAGGTGAATGTTGTCTTGTGTTGATCT
* * **
44570403 TCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCTAGAAAATATTAATAGTCTCGCTT
131 TCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCGCCC
*
44570468 TGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGATCTTTTCTAGTCGCCTTGT
196 TGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGATCTTTCCTAGTCGCCTTGT
44570533 TTCA
261 TTCA
44570537 CAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACATAAAC
1 CAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACATAAAC
* *
44570602 CAAATGGAATGCGTCTAAATG-AAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTGATCT
66 CAAATGGAATGCGTCTAAATGAAAATGTACCATACGGGCAGGTGAATGTTGTCTTGTGTTGATCT
44570666 TCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCGCCC
131 TCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCGCCC
44570731 TGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGATCTTTCCTAGTCGCCTTGT
196 TGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGATCTTTCCTAGTCGCCTTGT
44570796 T
261 T
44570797 CAGCTTCCGA
Statistics
Matches: 252, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
263 167 0.66
264 85 0.34
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (264 bp):
CAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACATAAAC
CAAATGGAATGCGTCTAAATGAAAATGTACCATACGGGCAGGTGAATGTTGTCTTGTGTTGATCT
TCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCGCCC
TGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGATCTTTCCTAGTCGCCTTGT
TTCA
Found at i:44594782 original size:24 final size:24
Alignment explanation
Indices: 44594755--44594800 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44594745 TTAAGGAATG
*
44594755 GATTATGGAGAAAATCAAGGAGAA
1 GATTAGGGAGAAAATCAAGGAGAA
* *
44594779 GATTAGGGAGGAAATCATGGAG
1 GATTAGGGAGAAAATCAAGGAG
44594801 GGATTTAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.35, T:0.17
Consensus pattern (24 bp):
GATTAGGGAGAAAATCAAGGAGAA
Found at i:44614433 original size:30 final size:31
Alignment explanation
Indices: 44614357--44614439 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
44614347 TCAGTCTCGA
44614357 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
44614387 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
44614418 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
44614440 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:44614679 original size:24 final size:25
Alignment explanation
Indices: 44614652--44614703 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
44614642 GCCTAGCCTC
*
44614652 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
*
44614676 TTTTGATAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
44614701 TTT
1 TTT
44614704 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:44614687 original size:25 final size:25
Alignment explanation
Indices: 44614659--44614728 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
44614649 CTCTTTTAAT
*
44614659 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
44614684 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
44614709 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
44614729 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:44614780 original size:16 final size:16
Alignment explanation
Indices: 44614759--44614789 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44614749 AACCCAACCC
*
44614759 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
44614775 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
44614790 CCCATAGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:44615680 original size:27 final size:27
Alignment explanation
Indices: 44615622--44615832 Score: 192
Period size: 27 Copynumber: 7.8 Consensus size: 27
44615612 CATCCTACAA
* * * * *
44615622 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * ** *
44615649 TGGTATTTTAGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
44615676 GGGTATTTTGGTAATTTTAC-AACTTG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
44615702 AGGGTATTTCAGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
44615730 TGGTATTTTGGTAATTTTGCAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
44615757 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
44615784 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
**
44615811 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
44615833 TCGAGGGTAA
Statistics
Matches: 144, Mismatches: 37, Indels: 7
0.77 0.20 0.04
Matches are distributed among these distances:
26 5 0.03
27 132 0.92
28 7 0.05
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:44615706 original size:81 final size:82
Alignment explanation
Indices: 44615621--44615802 Score: 244
Period size: 81 Copynumber: 2.2 Consensus size: 82
44615611 TCATCCTACA
* * *
44615621 AGGGTGTTTTGGTAAATCTACAAACCAATGGTATTTTAGTAATTTTGTAAATTAGGGGTATTTTG
1 AGGGTATTTTGGTAAATCTACAAACCAATGGTATTTTAGTAATTTTGCAAACTAGGGGTATTTTG
*
44615686 GTAATTTTAC-AACTTG
66 GTAATTTTACAAACTAG
** * * *
44615702 AGGGTATTTCAGT-AATTTCACAAACCAGTGGTATTTTGGTAATTTTGCAAACTAGGGGTATTTT
1 AGGGTATTTTGGTAAATCT-ACAAACCAATGGTATTTTAGTAATTTTGCAAACTAGGGGTATTTT
44615766 GGTAATTTTACAAACTAG
65 GGTAATTTTACAAACTAG
*
44615784 -GGGTATTTTGGTAATTCTA
1 AGGGTATTTTGGTAAATCTA
44615803 TCCTACAGGG
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 4 0.05
81 73 0.86
82 8 0.09
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (82 bp):
AGGGTATTTTGGTAAATCTACAAACCAATGGTATTTTAGTAATTTTGCAAACTAGGGGTATTTTG
GTAATTTTACAAACTAG
Found at i:44615914 original size:27 final size:27
Alignment explanation
Indices: 44615835--44615906 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
44615825 TTTTACAATC
*
44615835 GAGGGTAAAACAATAATTTTGTAAACT
1 GAGGGTAAAACAATAATTTTGTAAATT
* ***
44615862 GAAGGTAAAATGGTAATTTTGTAAATT
1 GAGGGTAAAACAATAATTTTGTAAATT
44615889 GAGGGTAAAACAATAATT
1 GAGGGTAAAACAATAATT
44615907 CTATAAATCG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAACAATAATTTTGTAAATT
Found at i:44615922 original size:27 final size:27
Alignment explanation
Indices: 44615831--44615922 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
44615821 GTAATTTTAC
*
44615831 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAAGGTAAAACAATAATTTTGTA
***
44615858 AA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATC-GAAGGTAAAACAATAATTTTGTA
* * * *
44615885 AATTGAGGGTAAAACAATAATTCTATA
1 AATCGAAGGTAAAACAATAATTTTGTA
44615912 AATCGAAGGTA
1 AATCGAAGGTA
44615923 CTTTGGTAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (27 bp):
AATCGAAGGTAAAACAATAATTTTGTA
Found at i:44625911 original size:40 final size:40
Alignment explanation
Indices: 44625813--44626075 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
44625803 TCCTCGTTCA
* * * * *
44625813 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
44625852 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44625892 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44625932 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44625972 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
44626012 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44626052 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44626076 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44633851 original size:40 final size:40
Alignment explanation
Indices: 44633753--44634015 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
44633743 TCCTCGTTCA
* * * * *
44633753 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
44633792 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44633832 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44633872 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44633912 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
44633952 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44633992 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44634016 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44639685 original size:43 final size:43
Alignment explanation
Indices: 44639610--44639695 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
44639600 GAGATATGCG
*
44639610 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATTATGGATGTGA
1 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATTATAGATGTGA
* ** * *
44639653 GCATCCGGGCTCGTTGAGTGGTTTGAGTTCATTGTAGATGTGA
1 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATTATAGATGTGA
44639696 TGCCTGTGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCGAGATCATTATAGATGTGA
Found at i:44643748 original size:15 final size:15
Alignment explanation
Indices: 44643730--44643770 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
44643720 TTATATATTT
44643730 TGGATTTCTTTGTCA
1 TGGATTTCTTTGTCA
* *
44643745 TGGATTTTTTTTGTCT
1 TGGA-TTTCTTTGTCA
44643761 TGGATTTCTT
1 TGGATTTCTT
44643771 ATTTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (15 bp):
TGGATTTCTTTGTCA
Found at i:44646359 original size:46 final size:46
Alignment explanation
Indices: 44646301--44646475 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
44646291 TGTAACCCGC
*
44646301 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* * * *
44646347 CCATAAGTGAACTCGGACTCAACTCGACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G--T-GTTCGCAT
* *
44646397 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* *
44646440 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
44646476 ACGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 3 0.03
46 59 0.56
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:44646420 original size:93 final size:93
Alignment explanation
Indices: 44646308--44646476 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
44646298 CGCCCATAAG
* *
44646308 CGAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCG
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
44646373 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44646401 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
44646466 ACGAGTTCGGA
66 ACGAGTTCGGA
44646477 CGCTCAACCA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44653449 original size:47 final size:47
Alignment explanation
Indices: 44653397--44654133 Score: 1222
Period size: 47 Copynumber: 15.6 Consensus size: 47
44653387 GATAATTGTG
* *
44653397 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44653444 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44653491 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44653540 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
44653587 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44653634 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44653681 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44653730 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
44653777 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44653824 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44653871 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
44653918 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44653965 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44654014 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
44654061 ATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44654108 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
44654134 TCCCGAAGGG
Statistics
Matches: 649, Mismatches: 35, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 511 0.79
49 138 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44653563 original size:143 final size:141
Alignment explanation
Indices: 44653397--44654133 Score: 1249
Period size: 143 Copynumber: 5.2 Consensus size: 141
44653387 GATAATTGTG
* *
44653397 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
44653462 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATG
*
44653527 GCCGATGTGATGA
129 GCCAATGTGATGA
*
44653540 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * *
44653605 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
*
44653670 CGATGTGATGA
131 CAATGTGATGA
44653681 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
44653746 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
64 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
44653811 GCCAATGTGATGA
129 GCCAATGTGATGA
44653824 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
44653889 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
66 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
44653954 CAATGTGATGA
131 CAATGTGATGA
44653965 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
44654030 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTCGAGTG
64 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
44654095 GCCAACGTGATGG
129 GCCAATGTGATGA
*
44654108 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
44654134 TCCCGAAGGG
Statistics
Matches: 571, Mismatches: 19, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
141 202 0.35
143 369 0.65
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
CAATGTGATGA
Found at i:44653686 original size:190 final size:188
Alignment explanation
Indices: 44653397--44654133 Score: 1231
Period size: 190 Copynumber: 3.9 Consensus size: 188
44653387 GATAATTGTG
* * * *
44653397 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
*
44653462 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
44653527 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
129 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
44653587 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
44653652 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
44653717 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
129 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
44653777 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
*
44653842 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * *
44653907 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
131 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
44653965 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * * *
44654030 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTCGAGTG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* * * *
44654095 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
129 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44654134 TCCCGAAGGG
Statistics
Matches: 523, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
188 90 0.17
190 433 0.83
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (188 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:44658761 original size:46 final size:46
Alignment explanation
Indices: 44658694--44658868 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
44658684 TGTAACCCGC
*
44658694 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
44658740 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
*
44658790 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
44658833 CCATAAGTGAGCTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
44658869 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 3 0.03
46 59 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:44658819 original size:93 final size:93
Alignment explanation
Indices: 44658701--44658872 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
44658691 CGCCCATAAG
*
44658701 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
44658766 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44658794 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAGCTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
44658859 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44658873 TCAACCATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44658888 original size:46 final size:46
Alignment explanation
Indices: 44658697--44658888 Score: 144
Period size: 46 Copynumber: 4.2 Consensus size: 46
44658687 AACCCGCCCA
* * * ** * *
44658697 TAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC
44658742 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT-C
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCC
* * * ** * *
44658791 TCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC
*
44658835 ATAAGTGAGCTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CATCC
44658883 T-AGTGA
1 TAAGTGA
44658889 CATGTCACTT
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 65 0.58
47 29 0.26
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC
Found at i:44679097 original size:24 final size:24
Alignment explanation
Indices: 44679068--44679118 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
44679058 CCTTATTTTT
44679068 TATTTATATACTTACTTACTAAGC
1 TATTTATATACTTACTTACTAAGC
44679092 TATTTATATACTTACTTACTAAGC
1 TATTTATATACTTACTTACTAAGC
44679116 TAT
1 TAT
44679119 AAGCTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (24 bp):
TATTTATATACTTACTTACTAAGC
Found at i:44679119 original size:20 final size:21
Alignment explanation
Indices: 44679071--44679128 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
44679061 TATTTTTTAT
44679071 TTATATACTTACTTACTAAGC
1 TTATATACTTACTTACTAAGC
44679092 TATTTATATACTTACTTACTAAGC
1 ---TTATATACTTACTTACTAAGC
44679116 -TATA-AGCTTACTT
1 TTATATA-CTTACTT
44679129 TCTTTTCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
24 21 0.64
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (21 bp):
TTATATACTTACTTACTAAGC
Found at i:44686062 original size:22 final size:22
Alignment explanation
Indices: 44686046--44686088 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
44686036 AATGGTTATA
44686046 AACCATAATCAGGATGGCACAG
1 AACCATAATCAGGATGGCACAG
*
44686068 AGCCATAATCAGGATGGCACA
1 AACCATAATCAGGATGGCACA
44686089 AGGCTATCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (22 bp):
AACCATAATCAGGATGGCACAG
Found at i:44686168 original size:27 final size:27
Alignment explanation
Indices: 44686138--44686241 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 27
44686128 CAGCGACAGT
*
44686138 AATATAATCGGCACATAGCCATAGGTA
1 AATATGATCGGCACATAGCCATAGGTA
* * * *
44686165 AATATGATCGACACAGAGTCATCA-ATA
1 AATATGATCGGCACATAGCCAT-AGGTA
* * * *
44686192 AATATGATAGGAACTTAGCCACAGGTA
1 AATATGATCGGCACATAGCCATAGGTA
* * *
44686219 AATACGATTGGCACAAAGCCATA
1 AATATGATCGGCACATAGCCATA
44686242 ATCAAGATGG
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (27 bp):
AATATGATCGGCACATAGCCATAGGTA
Found at i:44686252 original size:22 final size:22
Alignment explanation
Indices: 44686227--44686290 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
44686217 TAAATACGAT
*
44686227 TGGCACAAAGCCATAATCAAGA
1 TGGCACAGAGCCATAATCAAGA
* * * *
44686249 TGGCACAGAGCCATATTTAGGT
1 TGGCACAGAGCCATAATCAAGA
44686271 TGGCACAGAGCCATAATCAA
1 TGGCACAGAGCCATAATCAA
44686291 ATTACGCGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (22 bp):
TGGCACAGAGCCATAATCAAGA
Found at i:44686580 original size:34 final size:34
Alignment explanation
Indices: 44686519--44686593 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
44686509 TAAAAGCATA
* *
44686519 ACAGTCATACGACTATATTCAAGTCAGTTAAAA-C
1 ACAGTCATACGACTATAGTCAAATCAG-TAAAATC
44686553 ACAGTCATACGA-TCATAGTCAAATCAGTAAAATTC
1 ACAGTCATACGACT-ATAGTCAAATCAGTAAAA-TC
44686588 ACAGTC
1 ACAGTC
44686594 TAAGTCGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 6 0.17
34 23 0.64
35 7 0.19
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (34 bp):
ACAGTCATACGACTATAGTCAAATCAGTAAAATC
Found at i:44686673 original size:27 final size:27
Alignment explanation
Indices: 44686643--44686712 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
44686633 TGGCCTATAG
*
44686643 GGGTATTTTAGTAATTTTACACTACAA
1 GGGTATTTCAGTAATTTTACACTACAA
* * **
44686670 GGGTA-TTCGGTAATTGTATGCTACAA
1 GGGTATTTCAGTAATTTTACACTACAA
44686696 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
44686713 CAAAAACTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 21 0.60
27 14 0.40
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACACTACAA
Found at i:44686767 original size:27 final size:26
Alignment explanation
Indices: 44686696--44686825 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 26
44686686 TATGCTACAA
* * *
44686696 GGGTATTTCAGTAATTTCAAAAACTGG
1 GGGTATTTCGGTAATTT-TACAACTGG
* *
44686723 GGGTATTTCAGTAATTTTACTGACTGG
1 GGGTATTTCGGTAATTTTAC-AACTGG
*
44686750 GGGTATTTCGGTAATTTTACAATTCGG
1 GGGTATTTCGGTAATTTTACAACT-GG
* * *
44686777 GGGTATTTTGATAAATTTACAAACTGG
1 GGGTATTTCGGTAATTTTAC-AACTGG
*
44686804 GAGTATTTCGGTAATTTTACAA
1 GGGTATTTCGGTAATTTTACAA
44686826 TCCAGGGTCA
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.06
27 78 0.91
28 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAACTGG
Found at i:44686779 original size:54 final size:54
Alignment explanation
Indices: 44686721--44686826 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
44686711 TTCAAAAACT
* ** *
44686721 GGGGGTATTTCAG-TAATTTTACTGACTGGGGGTATTTCGGTAATTTTACAATTC
1 GGGGGTATTT-AGATAAATTTACAAACTGGGAGTATTTCGGTAATTTTACAATTC
*
44686775 GGGGGTATTTTGATAAATTTACAAACTGGGAGTATTTCGGTAATTTTACAAT
1 GGGGGTATTTAGATAAATTTACAAACTGGGAGTATTTCGGTAATTTTACAAT
44686827 CCAGGGTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (54 bp):
GGGGGTATTTAGATAAATTTACAAACTGGGAGTATTTCGGTAATTTTACAATTC
Found at i:44687190 original size:16 final size:17
Alignment explanation
Indices: 44687169--44687201 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44687159 TACCCACGTA
*
44687169 GGCCCAT-CGGCCCATT
1 GGCCCATACGACCCATT
44687185 GGCCCATACGACCCATT
1 GGCCCATACGACCCATT
44687202 TTGGCCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.42, G:0.21, T:0.18
Consensus pattern (17 bp):
GGCCCATACGACCCATT
Found at i:44690475 original size:40 final size:40
Alignment explanation
Indices: 44690299--44690521 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
44690289 TCCTCGTTCA
* * * * *
44690299 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
44690338 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44690378 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44690418 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
44690458 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44690498 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44690522 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44695464 original size:22 final size:22
Alignment explanation
Indices: 44695436--44695499 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
44695426 TAAATACGAT
*
44695436 TGGCACAAAGCCATAATCAAGA
1 TGGCACAGAGCCATAATCAAGA
* * * *
44695458 TGGCACAGAGCCATATTTAGGT
1 TGGCACAGAGCCATAATCAAGA
44695480 TGGCACAGAGCCATAATCAA
1 TGGCACAGAGCCATAATCAA
44695500 ATTACGCGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (22 bp):
TGGCACAGAGCCATAATCAAGA
Found at i:44695949 original size:27 final size:27
Alignment explanation
Indices: 44695893--44696021 Score: 127
Period size: 27 Copynumber: 4.8 Consensus size: 27
44695883 TATGCTACAA
* *
44695893 GGGTATTTCAGTAATTTCAAAAAACT-G
1 GGGTATTTCAGTAATTT-TACAAACTGG
**
44695920 GGGTATTTCAGTAATTTTACTGACTGG
1 GGGTATTTCAGTAATTTTACAAACTGG
* * *
44695947 GGGTATTTCGGTAATTTTACAAATTCG
1 GGGTATTTCAGTAATTTTACAAACTGG
* *
44695974 GGGTATTTGA-TAAATTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAACTGG
* *
44696000 GAGTATTTTCGGTAATTTTACA
1 GGGTA-TTTCAGTAATTTTACA
44696022 TCCAGGGTCA
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
26 21 0.26
27 51 0.63
28 9 0.11
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAACTGG
Found at i:44695977 original size:54 final size:54
Alignment explanation
Indices: 44695893--44696021 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
44695883 TATGCTACAA
* * * **
44695893 GGGTATTTCAGTAATTTCA-AAAAACTGGGGTATTTCAGTAATTTTACTGACTGG
1 GGGTATTTCGGTAATTTTACAAAAACTGGGGTATTTCA-TAAATTTACAAACTGG
** *
44695947 GGGTATTTCGGTAATTTTACAAATTC-GGGGTATTTGATAAATTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAAAACTGGGGTATTTCATAAATTTACAAACTGG
*
44696000 GAGTATTTTCGGTAATTTTACA
1 GGGTA-TTTCGGTAATTTTACA
44696022 TCCAGGGTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 17 0.27
54 43 0.67
55 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAAAACTGGGGTATTTCATAAATTTACAAACTGG
Found at i:44699567 original size:40 final size:39
Alignment explanation
Indices: 44699435--44699654 Score: 173
Period size: 40 Copynumber: 5.6 Consensus size: 39
44699425 TCCTCGTTCA
* * ** *
44699435 AATGCCTTCGGGACATAGCCCGG-TTTTGTAAACTCACAAC
1 AATGCCTTCGGGACTTAACCCGGATTTAAT-AACTCGC-AC
* *
44699475 AATGCCTTCGGGACATAACCCGGATTT-ACAACTCG-AC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
44699512 GACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
44699552 GAATGCCTTCGGGACTTAACCCGGA-TTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
44699591 AATAGGCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 AAT-GCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
44699632 AAAGCCTTC-GGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44699655 CAGCATTCAA
Statistics
Matches: 151, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.01
38 31 0.21
39 48 0.32
40 60 0.40
41 10 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:44709244 original size:40 final size:40
Alignment explanation
Indices: 44709199--44709425 Score: 355
Period size: 40 Copynumber: 5.7 Consensus size: 40
44709189 ACAACCCAAT
* * ** *
44709199 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
44709239 TGCCTTCGGGACTTATCCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
44709279 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
44709319 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGTACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
44709359 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
44709399 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
44709426 TCCTCAATTG
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Done.