Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 18 of 30
Found at i:2844220 original size:21 final size:21
Alignment explanation
Indices: 2844194--2844269 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2844184 ACATGTTGCA
2844194 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2844215 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2844235 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2844256 ATGTATCGATACAT
1 ATGTATCGATACAT
2844270 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2844227 original size:41 final size:41
Alignment explanation
Indices: 2844176--2844269 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2844166 ACAATTCAAA
*
2844176 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2844217 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2844258 GTATCGATACAT
1 GTATCGATACAT
2844270 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2844326 original size:13 final size:13
Alignment explanation
Indices: 2844308--2844333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2844298 TACAGCAAGT
2844308 ATGTATCGATACA
1 ATGTATCGATACA
2844321 ATGTATCGATACA
1 ATGTATCGATACA
2844334 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2847380 original size:105 final size:105
Alignment explanation
Indices: 2847232--2847424 Score: 264
Period size: 105 Copynumber: 1.8 Consensus size: 105
2847222 ATACCTACTA
* * * *
2847232 TGATTATATCGATACAAGCTTTAGCAGTAGCTAAAATTTGATTTTTGGATC-GCAAGTATCGATA
1 TGATTATATCGATACAAGCTTGAGCAGAAGCTAAAATTCGATTTTTAGA-CAGCAAGTATCGATA
2847296 GATGAAGACTTAGTATCAATACCTAGGGTTGATTCCTGGTG
65 GATGAAGACTTAGTATCAATACCTAGGGTTGATTCCTGGTG
* *
2847337 TGATTGTATCGATACAAGCCTTGA-TAGAAGCTAAAATTCGATTTTTAGACAGCAAGTATCGATA
1 TGATTATATCGATACAAG-CTTGAGCAGAAGCTAAAATTCGATTTTTAGACAGCAAGTATCGATA
* * * *
2847401 TATGAAGGCTTGGTATCGATACCT
65 GATGAAGACTTAGTATCAATACCT
2847425 GATGTGATTG
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
104 1 0.01
105 71 0.93
106 4 0.05
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (105 bp):
TGATTATATCGATACAAGCTTGAGCAGAAGCTAAAATTCGATTTTTAGACAGCAAGTATCGATAG
ATGAAGACTTAGTATCAATACCTAGGGTTGATTCCTGGTG
Found at i:2852871 original size:21 final size:21
Alignment explanation
Indices: 2852829--2852871 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2852819 AATAATACAT
* * * *
2852829 ATTTTTATTATATTTGTTTTA
1 ATTTTTATTAAAGTTATATTA
2852850 ATTTTTATTAAAGTTATATTA
1 ATTTTTATTAAAGTTATATTA
2852871 A
1 A
2852872 AAATATTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTTATTAAAGTTATATTA
Found at i:2852921 original size:18 final size:17
Alignment explanation
Indices: 2852878--2852962 Score: 72
Period size: 18 Copynumber: 5.0 Consensus size: 17
2852868 TTAAAAATAT
2852878 TATTTAT-TTATATAAA
1 TATTTATATTATATAAA
2852894 T-TTTA-A-TATATAAA
1 TATTTATATTATATAAA
2852908 TAATTTATATTATATAAA
1 T-ATTTATATTATATAAA
*
2852926 T-TTTAATTATTTATATATTA
1 TATTT-A-TA-TTATATA-AA
*
2852946 TATTAATATTATATAAA
1 TATTTATATTATATAAA
2852963 ATATCAATCA
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
14 9 0.16
15 4 0.07
16 8 0.14
17 3 0.05
18 18 0.32
19 9 0.16
20 3 0.05
21 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTATATTATATAAA
Found at i:2852927 original size:15 final size:15
Alignment explanation
Indices: 2852879--2852950 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 15
2852869 TAAAAATATT
2852879 ATTTAT-TTATATAA
1 ATTTATATTATATAA
*
2852893 ATTT-TAATATATAAATA
1 ATTTAT-AT-TATATA-A
2852910 ATTTATATTATATAA
1 ATTTATATTATATAA
* *
2852925 ATTT-TAATTATTTAT
1 ATTTAT-ATTATATAA
2852940 ATATTATATTA
1 AT-TTATATTA
2852951 ATATTATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
13 1 0.02
14 5 0.11
15 15 0.33
16 16 0.35
17 8 0.17
18 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATATTATATAA
Found at i:2852966 original size:18 final size:18
Alignment explanation
Indices: 2852871--2852966 Score: 60
Period size: 18 Copynumber: 5.4 Consensus size: 18
2852861 AGTTATATTA
*
2852871 AAAATATTATTTATT-TAT
1 AAAATATTA-ATATTATAT
*
2852889 ATAAATTTTAATA-TATA-
1 A-AAATATTAATATTATAT
2852906 AATAAT-TT-ATATTATAT
1 AA-AATATTAATATTATAT
*
2852923 -AAATTTTAATTATTTATAT
1 AAAATATTAA-TA-TTATAT
**
2852942 ATTATATTAATATTATAT
1 AAAATATTAATATTATAT
2852960 AAAATAT
1 AAAATAT
2852967 CAATCATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
15 6 0.10
16 10 0.16
17 6 0.10
18 18 0.30
19 15 0.25
20 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AAAATATTAATATTATAT
Found at i:2854890 original size:2 final size:2
Alignment explanation
Indices: 2854883--2854915 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2854873 GATGCAACTT
2854883 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2854916 TTTTCCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2855725 original size:16 final size:16
Alignment explanation
Indices: 2855706--2855739 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2855696 AAAGTGAGAG
2855706 GAAAGAAAATAAGAAA
1 GAAAGAAAATAAGAAA
*
2855722 GAAAGAAAATAGGAAA
1 GAAAGAAAATAAGAAA
2855738 GA
1 GA
2855740 TTATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (16 bp):
GAAAGAAAATAAGAAA
Found at i:2858183 original size:2 final size:2
Alignment explanation
Indices: 2858176--2858209 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2858166 CTGACATAAG
*
2858176 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2858210 GTAAATTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2865069 original size:20 final size:20
Alignment explanation
Indices: 2865044--2865097 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
2865034 ATTTGAAGCA
2865044 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
2865064 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
2865084 ATGTATCGATACAA
1 ATGTATCGATACAA
2865098 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:2867500 original size:22 final size:21
Alignment explanation
Indices: 2867465--2867514 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2867455 TTTGTTGATG
*
2867465 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
2867485 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
2867506 AATTTGAAG
1 ATTTTGAAG
2867515 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:2867511 original size:21 final size:22
Alignment explanation
Indices: 2867472--2867514 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2867462 ATGATTTTGA
* *
2867472 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2867494 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2867515 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:2870131 original size:79 final size:78
Alignment explanation
Indices: 2870011--2870217 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 78
2870001 GAGATAATAA
* * * * * * *
2870011 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGG-TGGAGTATCCCCGATTATGAGAAATCAAT-A
2870076 -TTAGAAAAAAAAAT
64 TTTAGAAAAAAAAAT
* *
2870090 CGGGATTTGAGTATCCCCTCGAAAATAACGGGGTAGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGT-GGAGTATCCCCGATTATGAGAAATCAATAT
* ** * *
2870155 TTTGGGAATAAAGT
65 TTAGAAAAAAAAAT
*
2870169 CGGGGTTGGAGTATCCCCTCTG-AAATAACGGGGTTGGAGTATCCCCGAT
1 CGGGATTGGAGTATCCCCTC-GAAAATAACGGGG-TGGAGTATCCCCGAT
2870218 GATTAACGAG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
78 2 0.02
79 103 0.96
80 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTGGAGTATCCCCGATTATGAGAAATCAATATT
TAGAAAAAAAAAT
Found at i:2870204 original size:28 final size:27
Alignment explanation
Indices: 2870169--2870244 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
2870159 GGAATAAAGT
**
2870169 CGGGGTTGGAGTATCCCCTCTGAAATAA
1 CGGGGTTGGAGTATCCCCGATG-AATAA
*
2870197 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGAATAA
* *
2870224 CGAGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2870245 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGAATAA
Found at i:2870295 original size:54 final size:51
Alignment explanation
Indices: 2870228--2870358 Score: 147
Period size: 51 Copynumber: 2.5 Consensus size: 51
2870218 GATTAACGAG
* * * * *
2870228 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGCG--TTTTGAAAATAAAATCAGA
*
2870282 GTTGGAGTATCCCCGATTAT-AGAAAATTAGCGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGCGTTTTGAAAATAAAATCAGA
*
2870333 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
2870359 TTGAGAAACT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
51 35 0.53
52 4 0.06
53 9 0.14
54 18 0.27
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGCGTTTTGAAAATAAAATCAGA
Found at i:2872708 original size:13 final size:13
Alignment explanation
Indices: 2872690--2872715 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2872680 ACAAAGATCC
2872690 ATGTATCGATACA
1 ATGTATCGATACA
2872703 ATGTATCGATACA
1 ATGTATCGATACA
2872716 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2872711 original size:33 final size:33
Alignment explanation
Indices: 2872669--2872735 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2872659 AAAATTTCCA
***
2872669 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2872702 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2872735 A
1 A
2872736 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2872779 original size:19 final size:19
Alignment explanation
Indices: 2872755--2872840 Score: 112
Period size: 19 Copynumber: 4.8 Consensus size: 19
2872745 CAGTAGCTAA
2872755 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
2872774 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
*
2872793 TTATGTATGGATAC---A-
1 TTATGTATCGATACAATAC
*
2872808 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAATAC
2872825 TTATGTATCGATACAA
1 TTATGTATCGATACAA
2872841 ATTGTTGAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.17
14 1 0.02
16 2 0.03
18 1 0.02
19 45 0.76
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (19 bp):
TTATGTATCGATACAATAC
Found at i:2872818 original size:32 final size:32
Alignment explanation
Indices: 2872777--2872839 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2872767 ACAATACTTA
* *
2872777 TGTATCGATACAATACTTATGTATGGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2872809 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2872840 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2872903 original size:21 final size:22
Alignment explanation
Indices: 2872877--2872934 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
2872867 GTTGGGACCC
* *
2872877 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
2872898 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
2872919 TGTATCGATACATTTG
1 TGTATCGATACATTTG
2872935 GATAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:2873043 original size:19 final size:20
Alignment explanation
Indices: 2873014--2873054 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2873004 AAAAGTCATA
*
2873014 AAAATCTAAAAAGCATTTTC
1 AAAATCTAAAAACCATTTTC
*
2873034 AAAATC-AAAAACCTTTTTC
1 AAAATCTAAAAACCATTTTC
2873053 AA
1 AA
2873055 TCAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATCTAAAAACCATTTTC
Found at i:2876138 original size:20 final size:20
Alignment explanation
Indices: 2876115--2876152 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2876105 AAAATACCCA
2876115 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
2876135 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
2876153 GTGTTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:2878459 original size:30 final size:30
Alignment explanation
Indices: 2878391--2878536 Score: 143
Period size: 32 Copynumber: 4.7 Consensus size: 30
2878381 TCGATAATTT
*
2878391 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCAT-TTTT-CTTC
2878423 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTT-TCTTC
2878453 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCA-TTTTTCTTC
* * * *
2878484 AAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
1 AAAGTCCACGAC-TCAGTGGCA--TTTTTCTTC
* * *
2878516 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
2878537 CCTTCTTTTT
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
30 24 0.24
31 28 0.27
32 50 0.49
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTTCTTC
Found at i:2878663 original size:33 final size:33
Alignment explanation
Indices: 2878388--2879315 Score: 801
Period size: 34 Copynumber: 27.9 Consensus size: 33
2878378 TTTTCGATAA
* * * * *
2878388 TTTAAAGTCCACGACTCAGTGGCATC-TTTTCC
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * *
2878420 TTTAAAGTCCACGACTCAGTGGCA--TTTTGTC-
1 TTTAAAGCCCACAACTCCGTGGCACCTTTT-TCT
* * * * *
2878451 -TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * *
2878481 TTCAAAGCCCACAACTTCGTGGCACC-TTTTCC
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
2878513 TTTAAAGCCCACAACTCCGTGGCACCTTCTTT-T
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTTCT
*
2878546 TTTCAAAGCCCACAACTCCGTGGCACTTTTTTCGT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTC-T
*
2878581 CTTT-AAGTCCACAACTCCGTGGCACTCTTTTTCCCT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CT
2878617 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
*
2878651 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-T
*
2878686 TTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C-T
2878723 TTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACC-T-TTTT-CT
*
2878759 TCT-AAGCCCACAACTCCGTGGCACC-----CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * *
2878786 TTT-AAGTCCACGACTCCGTGGCA-CTCTTTTCC
1 TTTAAAGCCCACAACTCCGTGGCACCT-TTTTCT
* *
2878818 TTTAAAGCCCACAACTACGTGGCACTCTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCT
*
2878852 TCT-AAGCCCACAACTCCGTGGC-CCTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACC-TTTTTC-T
* *
2878885 CTTT-AAGTCCACAACTCTGTGGCACACTTTTTCTT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-T
*
2878920 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CT
*
2878956 TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
*
2878990 TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
**
2879024 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CT
2879060 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
* ****
2879094 TTTAAAGCCCACAACTCTGTGGCACCTACAACT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * **
2879127 TTGT---G-GCAC-TCT-C-TTTC-CC---TT-T
1 TT-TAAAGCCCACAACTCCGTGGCACCTTTTTCT
*
2879149 TTAAAA-CCCACAACTCCGTGGCACCTTTTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
2879181 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CT
*
2879218 TTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
2879252 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CT
* *
2879288 TTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT
2879316 CTCCCTTCTC
Statistics
Matches: 763, Mismatches: 66, Indels: 133
0.79 0.07 0.14
Matches are distributed among these distances:
22 3 0.00
24 3 0.00
25 2 0.00
26 4 0.01
27 26 0.03
28 2 0.00
29 2 0.00
30 27 0.04
31 35 0.05
32 61 0.08
33 141 0.18
34 157 0.21
35 136 0.18
36 43 0.06
37 117 0.15
38 4 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
Found at i:2878696 original size:35 final size:34
Alignment explanation
Indices: 2878484--2879315 Score: 757
Period size: 33 Copynumber: 24.8 Consensus size: 34
2878474 TTTTTTCTTC
* *
2878484 AAAGCCCACAACTTCGTGGCACC-TTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
2878516 AAAGCCCACAACTCCGTGGCACCTTCTTT-TTTTC
1 AAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTT
* *
2878550 AAAGCCCACAACTCCGTGGCACTTTTTTCGTCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTT
* *
2878585 -AAGTCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
2878621 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
2878654 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
*
2878689 AAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
* *
2878726 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTTCTTTTT
2878762 -AAGCCCACAACTCCGTGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
2878789 -AAGTCCACGACTCCGTGGCA-CTCTTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTT
* * *
2878821 AAAGCCCACAACTACGTGGCA-CTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTT
*
2878855 -AAGCCCACAACTCCGTGGC-CCTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACC-TTTTTC-TTTTT
* *
2878889 -AAGTCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
2878923 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
* *
2878960 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
2878994 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
2879027 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTT
2879064 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* **** *
2879097 AAAGCCCACAACTCTGTGGCACCTACAACTTTGT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * ** *
2879131 ---G-GCAC-TCT-C-TTTC-CC--TTT-TTA--
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
2879152 AAA-CCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
2879185 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
2879222 AAAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
2879255 AAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTTCTTTTT
* *
2879291 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
2879316 CTCCCTTCTC
Statistics
Matches: 668, Mismatches: 76, Indels: 111
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.00
24 3 0.00
25 2 0.00
26 4 0.01
27 25 0.04
28 3 0.00
29 2 0.00
30 6 0.01
31 2 0.00
32 26 0.04
33 158 0.24
34 143 0.21
35 133 0.20
36 31 0.05
37 124 0.19
38 4 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:2878796 original size:27 final size:27
Alignment explanation
Indices: 2878756--2878815 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
2878746 ACCTTCTTTT
*
2878756 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
2878783 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
2878810 TCTTTT
1 CCTTTT
2878816 CCTTTAAAGC
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:0.18, C:0.38, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:2879165 original size:191 final size:192
Alignment explanation
Indices: 2878930--2879310 Score: 560
Period size: 191 Copynumber: 2.0 Consensus size: 192
2878920 TTTAAAGCCC
* *
2878930 ACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTC
1 ACAACTCTGTGGCACTCTCTTTCCCTTTTCAAAACCCACAACTCCGTGGCACCTTCTTCTGTTT-
**
2878994 AAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTT-AAAGCCCACAACTTTGTGGCACTCTTTTT
65 AAAGCCCACAACTCCGTGGCACTCTTCTTCCTTTTCAAAGCCCACAACTCCGTGGCA--CTTTTT
*
2879056 TCCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTAAAGCCCACAACTCTGTGGCA
128 T-CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA
2879118 CCT
190 CCT
* * *
2879121 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTCTGTGGCACTCTCTTTCCCTTTTCAAAACCCACAACTCCGTGGCACCTTCTTCTGTTTA
*
2879186 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
66 AAGCCCACAACTCCGTGGCACTCTTCTT-CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
*
2879251 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
130 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
2879311 TCTTTCTCCC
Statistics
Matches: 172, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
191 99 0.58
192 14 0.08
193 30 0.17
194 10 0.06
195 19 0.11
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (192 bp):
ACAACTCTGTGGCACTCTCTTTCCCTTTTCAAAACCCACAACTCCGTGGCACCTTCTTCTGTTTA
AAGCCCACAACTCCGTGGCACTCTTCTTCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCT
Found at i:2879180 original size:87 final size:88
Alignment explanation
Indices: 2879034--2879206 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 88
2879024 TTTAAAGCCC
* * *
2879034 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTA
*
2879098 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
*
2879121 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTA
2879186 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
2879207 TCTTTTTCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 56 0.70
88 24 0.30
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:2879230 original size:71 final size:69
Alignment explanation
Indices: 2879129--2879315 Score: 286
Period size: 71 Copynumber: 2.7 Consensus size: 69
2879119 CTACAACTTT
* *
2879129 GTGGCACTCTCTTTCCCTTTTTAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCAC
2879194 AACTCC
64 AACTCC
*
2879200 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACA
2879265 ACTCC
65 ACTCC
* * *
2879270 GTGGCACTCTTTTTTCCTTTT-AAGTCCACAACTCCGTGGCATCTTT
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTT
2879316 CTCCCTTCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.20
70 42 0.39
71 44 0.41
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (69 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAA
CTCC
Found at i:2879275 original size:158 final size:157
Alignment explanation
Indices: 2878988--2879276 Score: 497
Period size: 158 Copynumber: 1.8 Consensus size: 157
2878978 GCACCTTCTT
* **
2878988 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAACCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
2879053 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
2879118 CCTACAACTTTGTGGCACTCTCTTTCC
131 CCTACAACTTTGTGGCACTCTCTTTCC
* *
2879145 CTTTTTAAAACCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAACCCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTCCGTGGCACTCT
*
2879210 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
2879275 AC
130 AC
2879277 TCTTTTTTCC
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
157 33 0.27
158 90 0.73
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAACCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACAACTTTGTGGCACTCTCTTTCC
Found at i:2879432 original size:33 final size:34
Alignment explanation
Indices: 2879318--2879458 Score: 241
Period size: 34 Copynumber: 4.2 Consensus size: 34
2879308 GCATCTTTCT
2879318 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2879352 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
2879386 CCCTTCTCCAAAGCCCACACAAGTTGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
2879419 CCATTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2879452 CCCTTCT
1 CCCTTCT
2879459 AAGCCCAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 38 0.38
34 63 0.62
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:2879522 original size:49 final size:49
Alignment explanation
Indices: 2879458--2880635 Score: 1280
Period size: 49 Copynumber: 24.7 Consensus size: 49
2879448 GCAACCCTTC
* *
2879458 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACTTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
* * * *
2879507 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG------CATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
2879550 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* * * *
2879599 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG------CATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
2879642 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCTT
* * * * * *
2879691 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGTC-CCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-CACTTTCATCTT
* * *
2879740 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
*
2879789 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
* * * * * * *
2879832 TAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
**
2879881 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
2879930 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCTT
* * * * * *
2879979 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGTC-CCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-CACTTTCATCTT
* * *
2880028 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* *
2880077 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
**
2880120 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
2880169 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCTT
* * * * * *
2880218 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGTC-CCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-CACTTTCATCTT
* * *
2880267 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* *
2880316 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
* * * * * *
2880359 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
2880408 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
* * *
2880457 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
* * *
2880505 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A----CACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
2880548 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTT-CATCTT
* * *
2880600 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
2880636 ACATCCTTTT
Statistics
Matches: 959, Mismatches: 116, Indels: 105
0.81 0.10 0.09
Matches are distributed among these distances:
43 229 0.24
44 1 0.00
45 4 0.00
46 1 0.00
47 4 0.00
48 54 0.06
49 621 0.65
50 7 0.01
52 38 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
Found at i:2879827 original size:190 final size:188
Alignment explanation
Indices: 2879453--2880591 Score: 1377
Period size: 190 Copynumber: 6.0 Consensus size: 188
2879443 CGGTGGCAAC
* *
2879453 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATG
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* * *
2879518 TAGCTGGCCTTGACTCAACACATTGG-----CATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
* * * *
2879578 GCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCA
130 GCATATTGGCA-CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * * *
2879638 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * * * *
2879703 AGCTGGCCTTGACTCAGCACATTGGTC-CCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATC
66 AGCTGGCCTTGAATCAGCACATTGG-CACC-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
2879767 AGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
129 AGCATATTGGCA-CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * * * * *
2879828 CCTTTAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATAT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
2879893 AGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
66 AGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
* * * * *
2879958 GCATATTGGCACCTTTATCTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGTCCCTTC
130 GCATATTGGCA-CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG------C
2880023 A
188 A
* * *
2880024 CCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
2880089 AGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAG
66 AGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
2880149 CATATTGGCACCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
131 CATATTGGCA-CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * * * * *
2880208 CCTTTATCTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGTC-CCTTCACCTTTAAGC
1 -C-----CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGG-CACCTTCATCTTTAAGT
* * * * * *
2880272 CCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCT
59 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGTCCAATATAGCTGGCCT
* * * *
2880337 TGAATCAGCACATTGGCA---C--CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGC
123 TGAATCAGCATATTGGCACTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
2880397 A
188 A
*
2880398 CCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
1 CC-T-----TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
*
2880463 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTG
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATAGCTGGCCTTG
* *
2880528 AATCAGCACATT-G-A---CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
125 AATCAGCATATTGGCACTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
2880587 CCTTT
1 CCTTT
2880592 TCCATCTTTA
Statistics
Matches: 840, Mismatches: 79, Indels: 72
0.85 0.08 0.07
Matches are distributed among these distances:
183 2 0.00
184 83 0.10
185 5 0.01
187 2 0.00
188 2 0.00
189 87 0.10
190 527 0.63
191 1 0.00
192 2 0.00
194 1 0.00
196 128 0.15
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (188 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
CATATTGGCACTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:2879831 original size:21 final size:21
Alignment explanation
Indices: 2879807--2879874 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2879797 ATGTAGCTGG
2879807 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* * *
2879828 CCTTTAAGC-CCGATATCGTTGG--
1 CCTTGAATCAGC-ATA---TTGGCA
2879850 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
2879871 CCTT
1 CCTT
2879875 CACCATTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 14 0.41
22 10 0.29
23 1 0.03
24 4 0.12
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:2879898 original size:239 final size:235
Alignment explanation
Indices: 2879458--2880591 Score: 1468
Period size: 239 Copynumber: 4.8 Consensus size: 235
2879448 GCAACCCTTC
* * * *
2879458 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCT
* * * * *
2879523 GGCCTTGACTCAACACATTGG------CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGTCCCTTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
2879582 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCATCTTTAAGT
131 ATTGGCA---TCA-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
*
2879647 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
192 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * * * * *
2879691 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGTC-CCTTCACCTTTAAGCCCGATATCGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-CACCTTCATCTTTAAGACCAATGTAGC
* * * * *
2879755 TGGCCTTGAATCAGCATATTGG-CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
65 TGGCCTTGAATCAGCACATTGGTC-CCTTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGC
* * * * *
2879819 ATATTGGCA-C-CTTTAAGCCCGATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCACCATT
129 ATATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TT
*
2879882 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
188 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2879930 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCT
* * *
2879995 GGCCTTGACTCAGCACATTGGTCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGTCCCTTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
*
2880060 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
131 ATTGGCA---TCA-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
*
2880125 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
192 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2880169 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCT
* * *
2880234 GGCCTTGACTCAGCACATTGGTCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGTCCCTTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
* *
2880299 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGC
131 ATTGGCA---TCA-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * * *
2880364 CCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCAT
192 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2880408 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCT
* * *
2880473 GGCCTTGAATCAGCACATTGG-CACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
66 GGCCTTGAATCAGCACATTGGTC-CCTTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCA
* * *
2880536 CATTGACA-C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
130 TATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
2880592 TCCATCTTTA
Statistics
Matches: 810, Mismatches: 69, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
232 45 0.06
233 105 0.13
234 3 0.00
235 1 0.00
238 41 0.05
239 574 0.71
240 1 0.00
243 1 0.00
244 1 0.00
245 38 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (235 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCT
GGCCTTGAATCAGCACATTGGTCCCTTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAA
TATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:2880623 original size:52 final size:53
Alignment explanation
Indices: 2880545--2880704 Score: 180
Period size: 52 Copynumber: 3.0 Consensus size: 53
2880535 ACATTGACAC
2880545 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACAT
* * * *
2880597 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCA-CAT
* * * * *
2880653 CTTTAAGCCCAATATCA-TTGGCCGTGAATCAACATATTGGCATCTTTATCAC
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCAC
2880705 TTTTCTCATC
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
52 38 0.43
53 2 0.02
54 9 0.10
55 4 0.04
56 35 0.39
57 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACAT
Found at i:2890265 original size:27 final size:27
Alignment explanation
Indices: 2890223--2890606 Score: 407
Period size: 27 Copynumber: 14.0 Consensus size: 27
2890213 TGGCATTTCT
*
2890223 TTTTAAAGTCCACAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
*
2890251 TTCTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * *
2890278 TTTCAAAGTCCACAACTCTGTAGCATCC
1 TTT-TAAGTCCACAACTCCGTGGCATCC
2890306 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
2890333 TTTTAAGTCCACAACTCCATGGCA-CTC
1 TTTTAAGTCCACAACTCCGTGGCATC-C
* * *
2890360 TTTTAAAGTCCACAATTCCGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* * *
2890388 TTTTAAGTCCACAACCCCATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
2890415 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
2890442 TTTTAAGTCCACAACTCCATGGCA-CTC
1 TTTTAAGTCCACAACTCCGTGGCATC-C
*
2890469 TTTTGAAATCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
2890497 TTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * * *
2890523 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTT-TAAGTCCACAACTCCGTGGCATCC
* * * *
2890551 TTCTCAAAGCCCACAAGTCAGTGGCAT-C
1 TT-T-TAAGTCCACAACTCCGTGGCATCC
* * *
2890579 TTTTCAAAGCCCACAAGTCAGTGGCATC
1 TTTT--AAGTCCACAACTCCGTGGCATC
2890607 ATTTCAAAAC
Statistics
Matches: 315, Mismatches: 28, Indels: 25
0.86 0.08 0.07
Matches are distributed among these distances:
26 7 0.02
27 182 0.58
28 100 0.32
29 26 0.08
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCATCC
Found at i:2890334 original size:82 final size:81
Alignment explanation
Indices: 2890189--2890614 Score: 435
Period size: 82 Copynumber: 5.1 Consensus size: 81
2890179 TAGTATTGTG
* * * * * *
2890189 ACCTCTTCAAAGTCCACGATTCAGTGGCATTTCTTTTTAAAGTCCACAACTCCATGGCATCCTTC
1 ACCT-TTCAAAGTCCACAACTCCGTGGCA--TCCTTTT-AAGTCCACAACTCCGTGGCATCCTTT
2890254 TAAGTCCACAACTCCGTGGC
62 TAAGTCCACAACTCCGTGGC
* *
2890274 ATCCTTTCAAAGTCCACAACTCTGTAGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAA
1 A-CCTTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAA
*
2890339 GTCCACAACTCCATGGC
65 GTCCACAACTCCGTGGC
* * * * * * *
2890356 ACTCTTTTAAAGTCCACAATTCCGTGGTACCCTTTTAAGTCCACAACCCCATGGCACCCTTTTAA
1 AC-CTTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAA
2890421 GTCCACAACTCCGTGGC
65 GTCCACAACTCCGTGGC
* * *
2890438 ACCCTTT-TAAGTCCACAACTCCATGGCA-CTCTTTTGAAATCCACAACTCCGTGGCATCCTTTT
1 A-CCTTTCAAAGTCCACAACTCCGTGGCATC-CTTTT-AAGTCCACAACTCCGTGGCATCCTTTT
2890501 AAGTCCACAACTCCGTGGC
63 AAGTCCACAACTCCGTGGC
* * * * * * *
2890520 ACCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCAT-CTTTTC
1 ACCTTTCAAAGTCCACAACTCCGTGGCATCCTT-T-TAAGTCCACAACTCCGTGGCATCCTTTT-
* * *
2890584 AAAGCCCACAAGTCAGTGGC
63 -AAGTCCACAACTCCGTGGC
*
2890604 ATCATTTCAAA
1 A-CCTTTCAAA
2890615 ACCCACAAGT
Statistics
Matches: 289, Mismatches: 40, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
80 1 0.00
81 28 0.10
82 185 0.64
83 26 0.09
84 17 0.06
85 29 0.10
86 3 0.01
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (81 bp):
ACCTTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAG
TCCACAACTCCGTGGC
Found at i:2890399 original size:109 final size:108
Alignment explanation
Indices: 2890223--2890606 Score: 454
Period size: 109 Copynumber: 3.5 Consensus size: 108
2890213 TGGCATTTCT
* *
2890223 TTTTAAAGTCCACAACTCCATGGCA-TCCTTCT-AAGTCCACAACTCCGTGGCATCCTTTCAAAG
1 TTTT-AAGTCCACAACTCCATGGCACT-CTTTTAAAGTCCACAACTCCGTGGCATCCTTT-TAAG
* *
2890286 TCCACAACTCTGTAGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
63 TCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCATCC
* * *
2890333 TTTTAAGTCCACAACTCCATGGCACTCTTTTAAAGTCCACAATTCCGTGGTACCCTTTTAAGTCC
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
* * *
2890398 ACAACCCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
66 ACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCATCC
2890442 TTTTAAGTCCACAACTCCATGGCACTCTTTTGAAA-TCCACAACTCCGTGGCATCCTTTTAAGTC
1 TTTTAAGTCCACAACTCCATGGCACTCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
* * * *
2890506 CACAACTCCGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCATCC
65 CACAACTCCGTGGCACCTTT-TAAGTCCACAACTCCGTGGCATCC
* * * * * *
2890551 TTCTCAAAGCCCACAAGT-CAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATC
1 TT-T-TAAGTCCACAACTCCA-TGGCACTCTTTT-AAAGTCCACAACTCCGTGGCATC
2890607 ATTTCAAAAC
Statistics
Matches: 238, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
108 5 0.02
109 159 0.67
110 43 0.18
111 31 0.13
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (108 bp):
TTTTAAGTCCACAACTCCATGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
ACAACTCCGTGGCACCTTTTAAGTCCACAACTCCGTGGCATCC
Found at i:2890651 original size:28 final size:29
Alignment explanation
Indices: 2890505--2891255 Score: 506
Period size: 28 Copynumber: 25.6 Consensus size: 29
2890495 CCTTTTAAGT
* *
2890505 CCACAACTCCGTGGCAC-C-TTTCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
*
2890532 CCACAAGTCAGTGGCA-TCCTTCTCAAAGC
1 CCACAAGTCAGTGGCACTCATT-TCAAAGC
*
2890561 CCACAAGTCAGTGGCA-TCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
*
2890589 CCACAAGTCAGTGGCA-TCATTTCAAAAC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
* *
2890617 CCACAAGTAAGTGGCATTC-TTTCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
* * *
2890645 CCACAAGTTATTGGCA-TCACTTCAAAGCC
1 CCACAAGTCAGTGGCACTCATTTCAAAG-C
* *
2890674 CACACAAGTCGGTCGCAGCTCATTTCAAAGC
1 C-CACAAGTCAGTGGCA-CTCATTTCAAAGC
* * *
2890705 CCACAAGTCGGCGGCA-TCTTTTCAAAGCC
1 CCACAAGTCAGTGGCACTCATTTCAAAG-C
* *
2890734 CACACAAGTCGGTGGCAC-CCTTTCAAAGCC
1 C-CACAAGTCAGTGGCACTCATTTCAAAG-C
* **
2890764 CACACAAGTCGGTGGCAACTCATTTGGAAGCC
1 C-CACAAGTCAGTGGC-ACTCATTTCAAAG-C
** * *
2890796 CACACAAGTTGGTGGCAACCCATTTCAAATC
1 C-CACAAGTCAGTGGC-ACTCATTTCAAAGC
2890827 CTACACAAGTTC-GTGGCAAC-CTATTTCAAAGCC
1 C--CACAAG-TCAGTGGC-ACTC-ATTTCAAAG-C
** * *
2890860 CACACAAGTTGGTGGCAACCCATTTGAAAGC
1 C-CACAAGTCAGTGGC-ACTCATTTCAAAGC
*
2890891 CCACATAAGTCGGTGGCAACTCATTTCAAAGCC
1 CCAC--AAGTCAGTGGC-ACTCATTTCAAAG-C
** * * *
2890924 CACACAAGTTGGTGGTAACCCATTTGAAAGCC
1 C-CACAAGTCAGTGG-CACTCATTTCAAAG-C
* *
2890956 CACACAAGTCGGTGGCA-TCTTTTCAAAGC
1 C-CACAAGTCAGTGGCACTCATTTCAAAGC
*
2890985 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
* * * *
2891013 CCACAAGTCAGTGGTA-TCCTTTCAATGT
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
**
2891041 CCACAAGTTGGTGGC-CTCATTTCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
* * * * *
2891069 CTACAAGTCAATGGTA-TCTTTTCCAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
*
2891097 CCACAAGTTAGTGGCAACT--TTTCAAAGC
1 CCACAAGTCAGTGGC-ACTCATTTCAAAGC
*
2891125 CCACGAGTCAGTGGCAACT--TTTCAAAGC
1 CCACAAGTCAGTGGC-ACTCATTTCAAAGC
* * * *
2891153 CCACAAGTTAGCGGCA-TCCTTCCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
* *
2891181 CCACAAGTTAGTGGCA-TCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCATTTCAAAGC
* *
2891209 CAACAAGTCAATGGCA-TC-TGTTCAAAGC
1 CCACAAGTCAGTGGCACTCAT-TTCAAAGC
*
2891237 CCACAGAAGTTAGTGGCAC
1 CCAC--AAGTCAGTGGCAC
2891256 CTTTTTTTTA
Statistics
Matches: 606, Mismatches: 81, Indels: 70
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.00
27 19 0.03
28 295 0.49
29 36 0.06
30 87 0.14
31 11 0.02
32 148 0.24
33 6 0.01
34 3 0.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (29 bp):
CCACAAGTCAGTGGCACTCATTTCAAAGC
Found at i:2890705 original size:32 final size:32
Alignment explanation
Indices: 2890523--2891017 Score: 410
Period size: 32 Copynumber: 16.4 Consensus size: 32
2890513 CCGTGGCACC
* *
2890523 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
2890551 TTCTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
1 TT-TCAAAGCCCACACAAGTCGGTGGCAACTCA
*
2890580 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* ** *
2890608 TTTCAAA-ACC-CACAAGTAAGTGGC-ATTC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
***
2890636 TTTCAAAG-CC-CACAAGTTATTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
2890664 CTTCAAAGCCCACACAAGTCGGTCGCAGCTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
2890696 TTTCAAAG-CC-CACAAGTCGGCGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
2890724 TTTCAAAGCCCACACAAGTCGGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
2890754 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
** * *
2890786 TTTGGAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
2890818 TTTCAAATCCTACACAAGTTC-GTGGCAAC-CTA
1 TTTCAAAGCCCACACAAG-TCGGTGGCAACTC-A
* *
2890850 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
2890882 TTTGAAAGCCCACATAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
2890914 TTTCAAAGCCCACACAAGTTGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
2890946 TTTGAAAGCCCACACAAGTCGGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
2890976 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
2891004 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
2891018 AGTCAGTGGT
Statistics
Matches: 398, Mismatches: 48, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.01
28 112 0.28
29 37 0.09
30 73 0.18
31 7 0.02
32 165 0.41
33 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
Found at i:2891432 original size:49 final size:49
Alignment explanation
Indices: 2891332--2891546 Score: 248
Period size: 49 Copynumber: 4.6 Consensus size: 49
2891322 AAATCCGATA
* * * *
2891332 TCGCTGGCATTGAATCAGCATATTGG--CAC-CTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTTCCTTAGCCCAATG
* *
2891377 TCGCTGGCCTTGAATCAACACATTGGTCCACTTTTTCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTTCCTTAGCCCAATG
* * *
2891426 TTGCTGGCCTTGAATCAGCACATT-ATCCAC--TTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTTCCTTAGCCCAATG
* * *
2891471 TCGTTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTTCCTTAGCCCAATG
**
2891520 TCGCTGGCCTTGAATTGGCACATTGGT
1 TCGCTGGCCTTGAATCAGCACATTGGT
2891547 AATCCTCTCA
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
45 55 0.39
46 8 0.06
47 3 0.02
48 10 0.07
49 66 0.46
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTTCCTTAGCCCAATG
Found at i:2891459 original size:94 final size:94
Alignment explanation
Indices: 2891332--2891544 Score: 304
Period size: 94 Copynumber: 2.3 Consensus size: 94
2891322 AAATCCGATA
* * *
2891332 TCGCTGGCATTGAATCAGCATATTGGCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAACA
1 TCGCTGGCCTTGAATCAGCACATTGCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAACA
*
2891397 CATTGGTCCACTTTTTCCTTAG-CTCAATG
66 CATTGGTCCACTTTTCCCTTAGTC-CAATG
* * * *
2891426 TTGCTGGCCTTGAATCAGCACATTATCCA-CTTTATTAGCCCAATGTCGTTGGCCTTGAATCAGC
1 TCGCTGGCCTTGAATCAGCACATT-GCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAAC
2891490 ACATTGGTCCACTTTTCCCTTAGTCCAATG
65 ACATTGGTCCACTTTTCCCTTAGTCCAATG
**
2891520 TCGCTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
2891545 GTAATCCTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
94 102 0.97
95 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (94 bp):
TCGCTGGCCTTGAATCAGCACATTGCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAACA
CATTGGTCCACTTTTCCCTTAGTCCAATG
Found at i:2897082 original size:33 final size:33
Alignment explanation
Indices: 2897040--2897107 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2897030 CCGTTAGAAG
*
2897040 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATAT-ACCATGTATCGATA
2897073 CAATGTATCGATACAATATACCATGTATCGATA
1 CAATGTATCGATACAATATACCATGTATCGATA
2897106 CA
1 CA
2897108 GACAGTGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (33 bp):
CAATGTATCGATACAATATACCATGTATCGATA
Found at i:2897093 original size:20 final size:20
Alignment explanation
Indices: 2897070--2897107 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2897060 TCATGTATCG
2897070 ATACAATGTATCGATACAAT
1 ATACAATGTATCGATACAAT
*
2897090 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
2897108 GACAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (20 bp):
ATACAATGTATCGATACAAT
Found at i:2897106 original size:13 final size:13
Alignment explanation
Indices: 2897040--2897089 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
2897030 CCGTTAGAAG
2897040 CAATGTATCGATA
1 CAATGTATCGATA
2897053 CAA--T-TC-AT-
1 CAATGTATCGATA
2897061 C-ATGTATCGATA
1 CAATGTATCGATA
2897073 CAATGTATCGATA
1 CAATGTATCGATA
2897086 CAAT
1 CAAT
2897090 ATACCATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.13
11 3 0.10
12 1 0.03
13 18 0.58
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2897162 original size:20 final size:20
Alignment explanation
Indices: 2897137--2897191 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2897127 CTGCCAGTTT
* **
2897137 CATGTATCGAGACAATTGTC
1 CATGTATCGATACAATTGAA
2897157 CATGTATCGATAC-ATTGAA
1 CATGTATCGATACAATTGAA
2897176 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2897192 GTATCAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2897195 original size:13 final size:13
Alignment explanation
Indices: 2897177--2897235 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
2897167 TACATTGAAC
2897177 ATGTATCGATACA
1 ATGTATCGATACA
*
2897190 ATGTATCAATACA
1 ATGTATCGATACA
*
2897203 A---AGC-AT--A
1 ATGTATCGATACA
2897210 ATGTAT-GATACA
1 ATGTATCGATACA
2897222 ATGTATCGATACA
1 ATGTATCGATACA
2897235 A
1 A
2897236 AGCATAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
7 2 0.06
9 2 0.06
10 5 0.14
12 7 0.19
13 20 0.56
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2897202 original size:32 final size:32
Alignment explanation
Indices: 2897177--2897254 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
2897167 TACATTGAAC
*
2897177 ATGTATCGATACAATGTATCAATACAAAGCATA
1 ATGTAT-GATACAATGTATCGATACAAAGCATA
2897210 ATGTATGATACAATGTATCGATACAAAGCATA
1 ATGTATGATACAATGTATCGATACAAAGCATA
2897242 ATGTATCGATACA
1 ATGTAT-GATACA
2897255 TCTGGGTGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
32 31 0.72
33 12 0.28
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (32 bp):
ATGTATGATACAATGTATCGATACAAAGCATA
Found at i:2903518 original size:20 final size:20
Alignment explanation
Indices: 2903493--2903548 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
2903483 CTGCCAGTTT
*
2903493 CATGTATCGATACAACTG-TC
1 CATGTATCGATACAA-TGAAC
2903513 CATGTATCGATACAATGAAC
1 CATGTATCGATACAATGAAC
2903533 C-TGTATCGATACAATG
1 CATGTATCGATACAATG
2903549 TATTGATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATGAAC
Found at i:2907105 original size:104 final size:105
Alignment explanation
Indices: 2906988--2907399 Score: 476
Period size: 104 Copynumber: 3.9 Consensus size: 105
2906978 ATCCAACTCG
* * *
2906988 TTCTTCATAAAAAAATTAAATTTTCTCTTTGTCCTTAAATATTTTCATAATTTTATCATTCGAGA
1 TTCTTCATAAAAAAATTAAATTTTCTCTTTGTCCTTAAATATTTTCATAATTTTATCTTTGGGGA
* * *
2907053 AACTCCAACCCTATTACTTTGAAGGGGATACTACAA-CCTA
66 AACTCCAACCCCATTACTTTG-AGGGGATACTTCAACCCCA
* *
2907093 TTCTTCAT-AAAAAATTAAATTTTCTCTTTGT-TTCTAAATATTTTTATAATTTTATCTTTGGGG
1 TTCTTCATAAAAAAATTAAATTTTCTCTTTGTCCT-TAAATATTTTCATAATTTTATCTTTGGGG
* * ** * * *
2907156 AAACTCCAACCTCACTACTCCGAAGGGATACTTCAATCCCG
65 AAACTCCAACCCCATTACTTTGAGGGGATACTTCAACCCCA
* * * * *
2907197 TTCTTCATAAAAAAATTAAAATTCTCTCTTTATCCCTAGATGTTTTCATAATTTTATCTTTAGGG
1 TTCTTCATAAAAAAATT-AAATTTTCTCTTTGTCCTTAAATATTTTCATAATTTTATCTTT-GGG
* *
2907262 AAAACTCCAACCCCATTACTTTGAGGGGACACTTCAACCCCA
64 GAAACTCCAACCCCATTACTTTGAGGGGATACTTCAACCCCA
* * * *
2907304 TTTTTCAT-AAAAAATCATATTTTCTCTTTGTTCC-TATATATTTTCATAATTTTATCTTTGGGG
1 TTCTTCATAAAAAAATTAAATTTTCTCTTTG-TCCTTAAATATTTTCATAATTTTATCTTTGGGG
**
2907367 ATGCTCCAACCCCACTT-CTTTGAGGGGATACTT
65 AAACTCCAACCCCA-TTACTTTGAGGGGATACTT
2907400 TAGCCCCACA
Statistics
Matches: 258, Mismatches: 41, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
103 13 0.05
104 105 0.41
105 52 0.20
106 45 0.17
107 43 0.17
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.40
Consensus pattern (105 bp):
TTCTTCATAAAAAAATTAAATTTTCTCTTTGTCCTTAAATATTTTCATAATTTTATCTTTGGGGA
AACTCCAACCCCATTACTTTGAGGGGATACTTCAACCCCA
Found at i:2907399 original size:211 final size:209
Alignment explanation
Indices: 2906986--2907382 Score: 571
Period size: 211 Copynumber: 1.9 Consensus size: 209
2906976 AAATCCAACT
* * * *
2906986 CGTTCTTCATAAAAAAATTAAATTTTCTCTTTGTCCTTAAATATTTTCATAATTTTATCATTCGA
1 CGTTCTTCATAAAAAAATTAAATTCTCTCTTTATCCCTAAATATTTTCATAATTTTATCATTAGA
* * * *
2907051 GAAACTCCAACCCTATTACTTTGAAGGGGATACTACAACCTATTCTTCATAAAAAATTAAATTTT
66 GAAACTCCAACCCCATTACTTTGAAGGGGACACTACAACCCATTCTTCATAAAAAATCAAATTTT
* * *
2907116 CTCTTTGTTTCTAAATATTTTTATAATTTTATCTTTGGGGAAACTCCAACCTCACTACTCCGAAG
131 CTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTGGGGAAACTCCAACCCCACTACTCCGAAG
2907181 GGATACTTCAATCC
196 GGATACTTCAATCC
* * *
2907195 CGTTCTTCATAAAAAAATTAAAATTCTCTCTTTATCCCTAGATGTTTTCATAATTTTATCTTTAG
1 CGTTCTTCATAAAAAAATT-AAATTCTCTCTTTATCCCTAAATATTTTCATAATTTTATCATTAG
* * * *
2907260 GGAAAACTCCAACCCCATTACTTTG-AGGGGACACTTCAACCCCATTTTTCATAAAAAATCATAT
65 AG-AAACTCCAACCCCATTACTTTGAAGGGGACACTACAA-CCCATTCTTCATAAAAAATCAAAT
* **
2907324 TTTCTCTTTGTTCCTATATATTTTCATAATTTTATCTTTGGGGATGCTCCAACCCCACT
128 TTTCTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTGGGGAAACTCCAACCCCACT
2907383 TCTTTGAGGG
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
209 19 0.12
210 51 0.31
211 94 0.57
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (209 bp):
CGTTCTTCATAAAAAAATTAAATTCTCTCTTTATCCCTAAATATTTTCATAATTTTATCATTAGA
GAAACTCCAACCCCATTACTTTGAAGGGGACACTACAACCCATTCTTCATAAAAAATCAAATTTT
CTCTTTGTTCCTAAATATTTTCATAATTTTATCTTTGGGGAAACTCCAACCCCACTACTCCGAAG
GGATACTTCAATCC
Found at i:2909971 original size:13 final size:13
Alignment explanation
Indices: 2909953--2909980 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2909943 CATTATTCAA
2909953 TGTATCGATACAT
1 TGTATCGATACAT
2909966 TGTATCGATACAT
1 TGTATCGATACAT
2909979 TG
1 TG
2909981 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2909975 original size:33 final size:33
Alignment explanation
Indices: 2909933--2909996 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2909923 GCCAAGGAAA
2909933 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
2909966 TGTATCGATACATTGATCTTTGTATCGATAC
1 TGTATCGATACATTGATCAATGTATCGATAC
2909997 TGTCGCAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:2911101 original size:51 final size:50
Alignment explanation
Indices: 2910972--2911202 Score: 180
Period size: 51 Copynumber: 4.4 Consensus size: 50
2910962 AATGGGGCTA
* * * * * *
2910972 GAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAAAAATCGAGATTG
1 GAGTATCCCCGATTATAGAAAATCAGTATTTTA-AAAT----AAAATCGGGGTTG
**
2911027 GAGTATCCCTAATTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTATAGAAAATCAGTATTTT-AAAATAAAATCGGGGTTG
* * *
2911078 GAGTATCCCCGATTGT-GAGAAATCAGTGTTTTAGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATAGA-AAATCAGTATTTTA-AAATAAAATCGGGGTTG
* * * * *
2911129 GAGTATCCCCGATTA-AGGTAAATCGATGCTTTTTTAAAAAAAAATCAGAGTTG
1 GAGTATCCCCGATTATA-GAAAATC-A-G-TATTTTAAAATAAAATCGGGGTTG
*
2911182 GAGTATCCTCGATTA-AGAAAA
1 GAGTATCCCCGATTATAGAAAA
2911203 ATTGATGTTT
Statistics
Matches: 148, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
50 3 0.02
51 71 0.48
52 6 0.04
53 31 0.21
54 6 0.04
55 30 0.20
56 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (50 bp):
GAGTATCCCCGATTATAGAAAATCAGTATTTTAAAATAAAATCGGGGTTG
Found at i:2913155 original size:33 final size:33
Alignment explanation
Indices: 2913109--2913178 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
2913099 TACATTGTAA
*
2913109 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
2913142 AATGTATCAATACAATGAGCAATGTATCGATAC
1 AATGTATCAATACAATGAGCAATGTATCGATAC
2913175 AATG
1 AATG
2913179 CAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (33 bp):
AATGTATCAATACAATGAGCAATGTATCGATAC
Found at i:2913155 original size:53 final size:53
Alignment explanation
Indices: 2913089--2913195 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
2913079 AAAATGCCTG
* * *
2913089 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCAATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAC
*
2913142 AATGTATCAATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCAATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
2913195 A
1 A
2913196 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (53 bp):
AATGTATCAATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:2913177 original size:13 final size:13
Alignment explanation
Indices: 2913128--2913158 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2913118 ATACAATGAG
*
2913128 CAATGTATCGATA
1 CAATGTATCAATA
2913141 CAATGTATCAATA
1 CAATGTATCAATA
2913154 CAATG
1 CAATG
2913159 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:2913185 original size:20 final size:19
Alignment explanation
Indices: 2913089--2913195 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 19
2913079 AAAATGCCTG
*
2913089 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
2913109 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
2913129 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
* *
2913142 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGA-A
2913162 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
2913182 AATGTATCGATACA
1 AATGTATCGATACA
2913196 TCTGGGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 12 0.16
19 1 0.01
20 59 0.81
21 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:2913233 original size:13 final size:13
Alignment explanation
Indices: 2913211--2913240 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2913201 GTAAACCCAT
*
2913211 AATGTTTCGATAC
1 AATGTATCGATAC
2913224 AATGTATCGATAC
1 AATGTATCGATAC
2913237 AATG
1 AATG
2913241 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2913985 original size:76 final size:76
Alignment explanation
Indices: 2913898--2914066 Score: 293
Period size: 76 Copynumber: 2.2 Consensus size: 76
2913888 CTTTCTCCTT
* * *
2913898 GAGGACAAAGGAAAAAATAAAAGAGAAGTGTCTTGTTTCTTGAGGGCAAAGTGAAAAAGAGTACG
1 GAGGATAAAGGAAAAAAGAAAAGAGAAGTGTCTTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACG
2913963 TCCTGCTTTTC
66 TCCTGCTTTTC
* *
2913974 GAGGATAAAGGAAAAAGGAAAAGGGAAGTGTCTTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACG
1 GAGGATAAAGGAAAAAAGAAAAGAGAAGTGTCTTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACG
2914039 TCCTGCTTTTC
66 TCCTGCTTTTC
2914050 GAGGATAAAGGAAAAAA
1 GAGGATAAAGGAAAAAA
2914067 AAGAAAAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 87 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (76 bp):
GAGGATAAAGGAAAAAAGAAAAGAGAAGTGTCTTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACG
TCCTGCTTTTC
Found at i:2913995 original size:41 final size:42
Alignment explanation
Indices: 2913945--2914065 Score: 111
Period size: 35 Copynumber: 3.1 Consensus size: 42
2913935 TCTTGAGGGC
2913945 AAAGTGAAAAAGAGTACGTCCTGCTTTTCGAGGATAAAGGAA
1 AAAGTGAAAAAGAGTACGTCCTGCTTTTCGAGGATAAAGGAA
* * *
2913987 AAAG-GAAAAGGGAAGT--GTCTTGCTTCTT-GA-G-----GG-C
1 AAAGTGAAAA-AG-AGTACGTCCTGCTT-TTCGAGGATAAAGGAA
2914021 AAAGTGAAAAAGAGTACGTCCTGCTTTTCGAGGATAAAGGAA
1 AAAGTGAAAAAGAGTACGTCCTGCTTTTCGAGGATAAAGGAA
2914063 AAA
1 AAA
2914066 AAAGAAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 28
0.63 0.06 0.30
Matches are distributed among these distances:
33 3 0.05
34 7 0.12
35 17 0.29
36 1 0.02
40 1 0.02
41 17 0.29
42 10 0.17
43 3 0.05
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (42 bp):
AAAGTGAAAAAGAGTACGTCCTGCTTTTCGAGGATAAAGGAA
Found at i:2914075 original size:8 final size:8
Alignment explanation
Indices: 2914062--2914090 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2914052 GGATAAAGGA
2914062 AAAAAAAG
1 AAAAAAAG
2914070 AAAAAAAG
1 AAAAAAAG
2914078 AAAAAAAG
1 AAAAAAAG
2914086 AAAAA
1 AAAAA
2914091 TGAAATGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2914142 original size:42 final size:41
Alignment explanation
Indices: 2914088--2914248 Score: 162
Period size: 41 Copynumber: 3.8 Consensus size: 41
2914078 AAAAAAAGAA
*
2914088 AAATGAAA-TGCGTCCTGCTCTTTGAGGATAAAAGAAAGAGG
1 AAAT-AAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGG
*
2914129 AAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAATAAGG
1 -AAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAA-AG-AAA-GAGG
** * * * * *
2914175 GTATGAAGTGTGTCCTGCTCTTTGGGGACAAAGGAGAGAGG
1 AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGG
* *
2914216 AAATAGAGTGCATCCTGCTCTTTGAGGACAAAA
1 AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
2914249 AAGTGCCACC
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 31 0.32
42 26 0.27
43 4 0.04
44 5 0.05
45 27 0.28
46 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (41 bp):
AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGG
Found at i:2914237 original size:86 final size:87
Alignment explanation
Indices: 2914090--2914248 Score: 239
Period size: 87 Copynumber: 1.8 Consensus size: 87
2914080 AAAAAGAAAA
* *
2914090 ATGAAATGCGTCCTGCTCTTTGAGGATAAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGA
1 ATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGA
2914155 GGACAAAAGAGAAAATAAGGGT
66 GGACAAAAGAGAAAATAAGGGT
* * * * * *
2914177 ATGAAGTGTGTCCTGCTCTTTGGGGACAAAGGAGAGAGG-AAATAGAGTGCATCCTGCTCTTTGA
1 ATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGA
2914241 GGACAAAA
66 GGACAAAA
2914249 AAGTGCCACC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 31 0.48
87 33 0.52
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (87 bp):
ATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGA
GGACAAAAGAGAAAATAAGGGT
Found at i:2914433 original size:60 final size:60
Alignment explanation
Indices: 2914225--2914546 Score: 424
Period size: 61 Copynumber: 5.4 Consensus size: 60
2914215 GAAATAGAGT
* * *
2914225 GCATCCTGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAA
1 GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGAGAAA
* **
2914285 GACGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
1 G-CATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGAGAAA
*
2914347 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGAGAAA
1 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGAAA
* * *
2914407 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTGGAAAG-GAAAA
1 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAG-AAA
*
2914467 GGCATCCTGCTCTTTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-AG---
1 -GCATCCTGCTCTTTGAGGA-CTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGAGAAA
*
2914525 GCATCTTGCTCTTTGAGGACTA
1 GCATCCTGCTCTTTGAGGACTA
2914547 AAGGGCGAAA
Statistics
Matches: 236, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
56 3 0.01
57 17 0.07
59 1 0.00
60 66 0.28
61 105 0.44
62 23 0.10
63 21 0.09
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (60 bp):
GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGAAA
Found at i:2914478 original size:121 final size:121
Alignment explanation
Indices: 2914225--2914546 Score: 435
Period size: 121 Copynumber: 2.7 Consensus size: 121
2914215 GAAATAGAGT
* * *
2914225 GCATCCTGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGACG
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAAAG-CA
** *
2914289 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
64 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGCAAAGAGAAA
*
2914347 GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGGGTGGGCTTTGAAAGAGAAAGCAT
1 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AGAAAGCAT
* *
2914411 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGC-TTGGAAAG-GAAAA
65 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGCAAAGAG-AAA
*
2914467 GGCATCCTGCTCTTTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG---GCA
1 -GCATCCTGCTCTTTGAGGA-CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGCA
*
2914528 TCTTGCTCTTTGAGGACTA
64 TCCTGCTCTTTGAGGACTA
2914547 AAGGGCGAAA
Statistics
Matches: 181, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
118 20 0.11
119 1 0.01
120 10 0.06
121 64 0.35
122 59 0.33
123 27 0.15
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (121 bp):
GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGCATC
CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGCAAAGAGAAA
Found at i:2914620 original size:94 final size:96
Alignment explanation
Indices: 2914468--2914642 Score: 291
Period size: 94 Copynumber: 1.8 Consensus size: 96
2914458 AAAGGAAAAG
*
2914468 GCATCCTGCTCTTTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTG
1 GCATCCTGCTCTTTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTG
2914533 CTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
66 CTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
* ** *
2914564 GCATCCTGCTCTTTGAGGA-CT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
1 GCATCCTGCTCTTTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTG
2914627 CTCTTTGAGGACTAAA
66 CTCTTTGAGGACTAAA
2914643 AAATGCCACC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
94 54 0.73
95 2 0.03
96 18 0.24
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (96 bp):
GCATCCTGCTCTTTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTG
CTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
Found at i:2914651 original size:55 final size:55
Alignment explanation
Indices: 2914567--2914869 Score: 437
Period size: 55 Copynumber: 5.4 Consensus size: 55
2914557 GGAGAGAGCA
*** *
2914567 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2914622 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2914677 TCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
2914738 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGGAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2914794 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
2914849 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
2914870 GGGTGAAAGG
Statistics
Matches: 225, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
55 145 0.64
56 28 0.12
57 1 0.00
60 1 0.00
61 27 0.12
62 23 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2914806 original size:117 final size:116
Alignment explanation
Indices: 2914567--2914846 Score: 423
Period size: 117 Copynumber: 2.5 Consensus size: 116
2914557 GGAGAGAGCA
* * *
2914567 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
2914626 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
66 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2914677 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
* *
2914742 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGGAAGGCG
66 GCTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
2914794 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGG
2914847 CGTCCTGCTC
Statistics
Matches: 154, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
110 44 0.29
115 4 0.03
116 26 0.17
117 80 0.52
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2914881 original size:321 final size:326
Alignment explanation
Indices: 2914220--2914969 Score: 996
Period size: 321 Copynumber: 2.3 Consensus size: 326
2914210 GAGAGGAAAT
* * * *
2914220 AGAGTGCATCCTGCTCTTTGAGGACAAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAA
1 AGAGAGCATCCTGCTCTTTGAGGAC-TAGAAGTGCCACCAACTTGTGTGGGCTTT--AAAAG---
* **
2914285 GACGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
60 GACGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGAG--AGCA
*
2914350 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGAGAAAGCATCCTG
122 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGAGAAAGCATCCTG
*
2914415 CTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTGGAAAGGAAAAGGCATCCTGCTCT
187 CTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTT---AAGG-AAAGGCATCCTGCTCT
*
2914480 TTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAGGAC
248 TTAAGGACCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
2914545 TAAAGGGCGAAAGG
313 TAAAGGGCGAAAGG
*
2914559 AGAGAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-CGT
1 AGAGAGCATCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGACGT
*
2914623 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG-AA-AG-GCGTCCTACTC
65 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGAGCATCCTACTC
* *
2914685 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG-GAAAAGGCATCCTGCTCTTT
130 TTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGAG-AAA-GCATCCTGCTCTTT
* * * *
2914749 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTT-TGG-AAGGCGTCCTGCTCTTTGAGGA-C
193 GAGGACTAGAAAA-TGCCACCAACTTGGGTGGGCTTAAGGAAAGGCATCCTGCTCTTTAAGGACC
* * * *
2914811 TA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
257 TAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGCG
2914875 AAAGG
322 AAAGG
* * *
2914880 AGAGAGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAA
1 AGAGAGCATCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG---A
*
2914945 GGCGTCCTGCTTTTTGAGGACTAAA
62 --CGTCCTGCTCTTTGAGGACTAAA
2914970 GGGTGAAAAG
Statistics
Matches: 373, Mismatches: 27, Indels: 34
0.86 0.06 0.08
Matches are distributed among these distances:
320 3 0.01
321 115 0.31
322 3 0.01
323 20 0.05
325 2 0.01
326 1 0.00
327 76 0.20
328 26 0.07
329 21 0.06
330 2 0.01
331 2 0.01
333 47 0.13
334 1 0.00
337 5 0.01
339 49 0.13
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (326 bp):
AGAGAGCATCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGACGTC
CTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAGAGCATCCTACTCT
TTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGAGAAAGCATCCTGCTCTTTGAG
GACTAGAAAATGCCACCAACTTGGGTGGGCTTAAGGAAAGGCATCCTGCTCTTTAAGGACCTAGA
AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGCGAAAG
G
Found at i:2914991 original size:100 final size:99
Alignment explanation
Indices: 2914791--2915069 Score: 399
Period size: 100 Copynumber: 2.8 Consensus size: 99
2914781 GCTTTGGAAG
2914791 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
2914850 CCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
65 CCTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGA
* *
2914885 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
2914950 CCTGCTTTTTGAGGACTAAAGGGTGAAAAGAGAGA
65 CCTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGA
* * * * *
2914985 GGGTCCTGCTTTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAAGCGT
1 GCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
2915050 CCTACTCTTTGAGGACTAAA
65 CCTGCTCTTTGAGGACTAAA
2915070 AAGGTGCCAC
Statistics
Matches: 164, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
93 1 0.01
94 46 0.28
99 2 0.01
100 115 0.70
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (99 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
CTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGA
Found at i:2915087 original size:62 final size:62
Alignment explanation
Indices: 2914987--2915131 Score: 211
Period size: 62 Copynumber: 2.4 Consensus size: 62
2914977 AAGAGAGAGG
* *
2914987 GTCCTGCTTTTTGAGGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAAGC
1 GTCCTGCTATTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAAGC
* * * * *
2915048 GTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTATTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAAGC
*
2915110 GTCTTGCTATTTGAGGACTAAA
1 GTCCTGCTATTTGAGGACTAAA
2915132 GGGTGAAAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
61 17 0.23
62 57 0.77
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (62 bp):
GTCCTGCTATTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAAGC
Found at i:2915096 original size:162 final size:162
Alignment explanation
Indices: 2914884--2915231 Score: 565
Period size: 162 Copynumber: 2.2 Consensus size: 162
2914874 GAAAGGAGAG
* *
2914884 AGCGTCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGC
1 AGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
2914948 GTCCTGCTTTTTGAGGACTAAAGGGTGAAAAGAGAGAGGGTCCTGCTTTTTGAGGACTA-AGAGG
66 GTCCTGCTATTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGA-AGG
2915012 TGCCACCAACTTGTGTGGGCTTGAAAAGAAAAA
130 TGCCACCAACTTGTGTGGGCTTGAAAAGAAAAA
2915045 AGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 AGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2915110 GTCTTGCTATTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGT
66 GTCCTGCTATTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGT
* *
2915175 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
131 GCCACCAACTTGTGTGGGCTTGAAAAGAAAAA
* * *
2915207 GGCATCCTGCTCTTTGAGGACTAAA
1 AGCGTCCTACTCTTTGAGGACTAAA
2915232 GGGTGAAAGG
Statistics
Matches: 173, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
161 22 0.13
162 150 0.87
163 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (162 bp):
AGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
GTCCTGCTATTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGT
GCCACCAACTTGTGTGGGCTTGAAAAGAAAAA
Found at i:2915142 original size:39 final size:40
Alignment explanation
Indices: 2915098--2915173 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
2915088 GTGGGCTTTA
*
2915098 AAAGGAAA-AGGCGTCTTGCTATTTGAGGACTA-AAGGGTG
1 AAAGGAAAGA-GCGTCCTGCTATTTGAGGACTAGAAGGGTG
* *
2915137 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGG
1 AAAGGAAAGAGCGTCCTGCTATTTGAGGACTAGAAGG
2915174 TGCCACCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 27 0.84
40 5 0.16
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (40 bp):
AAAGGAAAGAGCGTCCTGCTATTTGAGGACTAGAAGGGTG
Found at i:2915152 original size:262 final size:261
Alignment explanation
Indices: 2914738--2915390 Score: 987
Period size: 262 Copynumber: 2.5 Consensus size: 261
2914728 GGAAAAGGCA
* * *
2914738 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG----G--AAGGCGTCC
1 TCCTGCTATTTGAGGACTA-AGAGGTGCCACCAACTTGTGTGGGC-TTGAAAAGAAAAGGCGTCC
2914797 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGC
64 TGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGC
2914855 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCA
129 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCA
* * *
2914920 ACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTTGAGGACTAAAGGGTGAAAAGAGAGA
194 ACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGA
*
2914985 GGG
259 GCG
* *
2914988 TCCTGCTTTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAAGCGTCCT
1 TCCTGCTATTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTGAAAAG-AAAAGGCGTCCT
* *
2915053 ACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCT
65 GCTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
* *
2915118 ATTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAA
130 CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAA
*
2915183 CTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAG
195 CTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGAG
2915248 CG
260 CG
*
2915250 T-CTGACTATTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTT-AAAAGGAATAGGCGTC
1 TCCTG-CTATTTGAGGACTAAG-AGGTGCCACCAACTTGTGTGGGCTTGAAAA-GAAAAGGCGTC
* *
2915312 CTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAATGCGTCCTG
63 CTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
2915377 CTCTTTGAGGACTA
128 CTCTTTGAGGACTA
2915391 GAAAAGTGCC
Statistics
Matches: 365, Mismatches: 21, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
248 3 0.01
249 23 0.06
250 18 0.05
252 1 0.00
255 22 0.06
256 29 0.08
261 92 0.25
262 177 0.48
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (261 bp):
TCCTGCTATTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
TTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAAC
TTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGAGC
G
Found at i:2915186 original size:100 final size:100
Alignment explanation
Indices: 2915045--2915330 Score: 477
Period size: 100 Copynumber: 2.9 Consensus size: 100
2915035 AAAAGAAAAA
* *
2915045 AGCGTCCTACTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 AGCGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
2915110 GTCTTGCTATTTGAGGACTAAAGGGTGAAAGGAGAG
65 GTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAG
*
2915146 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
2915211 TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAG
66 TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAG
* *
2915246 AGCGT-CTGACTATTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGC-TTAAAAGGAATAGGC
1 AGCGTCCTG-CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
2915309 GTCCTGCTCTTTGAGGACTAAA
65 GTCCTGCTCTTTGAGGACTAAA
2915331 AAGGTGCCAC
Statistics
Matches: 176, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
99 38 0.22
100 117 0.66
101 21 0.12
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (100 bp):
AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAG
Found at i:2915379 original size:62 final size:62
Alignment explanation
Indices: 2915258--2915431 Score: 273
Period size: 62 Copynumber: 2.8 Consensus size: 62
2915248 CGTCTGACTA
* *
2915258 TTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGC-TTAAAAGGAATAGGCGTCCTGCTC
1 TTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
* *
2915318 TTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAATGCGTCCTGCTC
1 TTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
2915380 TTTGAGGACTAGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAG
1 TTTGAGGACTA-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAG
2915432 AAGGAAATGA
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
60 10 0.10
61 24 0.23
62 60 0.58
63 10 0.10
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (62 bp):
TTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
Found at i:2915629 original size:63 final size:61
Alignment explanation
Indices: 2915512--2915692 Score: 242
Period size: 63 Copynumber: 3.0 Consensus size: 61
2915502 GAAGACTAGG
** *
2915512 AGGTGCCACCAACTTGTGTGGG-TTTTGAAGG-AGAAGGCGTCCTGCTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTAA
*
2915571 AGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAAGGCATCCTGCTCTTTGAGGACTAA
1 A-GGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAAGGCGTCCTGCTCTTTGAGGACTAA
* * * *
2915634 AGGTGCCACCAACTCGTATGGGCTTTGAAAA-GAAAAAAGCGTCCTGCTCTTTAAGGACT
1 AGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACT
2915693 GGAAGGGCTA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
59 1 0.01
60 21 0.19
61 30 0.28
62 25 0.23
63 31 0.29
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCGTCCTGCTCTTTGAGGACTAA
Found at i:2915671 original size:62 final size:61
Alignment explanation
Indices: 2915483--2915692 Score: 237
Period size: 60 Copynumber: 3.4 Consensus size: 61
2915473 GGAGGAAAAC
* * * * * *
2915483 AAAGTGCATCCCGCTCTTGGAAGACTAGGAGGTGCCACCAACTTGTGTGGGTTTTG--AAGGA
1 AAAG-GCATCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA
* *
2915544 GAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGGAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAA--GAA
* *
2915607 AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTATGGGCTTTGAAAAGAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA
* * *
2915668 AAAAGCGTCCTGCTCTTTAAGGACT
1 AAAGGCATCCTGCTCTTTGAGGACT
2915693 GGAAGGGCTA
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
59 1 0.01
60 42 0.33
61 30 0.23
62 23 0.18
63 32 0.25
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (61 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA
Found at i:2927139 original size:19 final size:20
Alignment explanation
Indices: 2927094--2927145 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2927084 TTACAAGCCA
* *
2927094 ATGTATCTATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
2927114 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
2927134 -TGTATCGATACA
1 ATGTATCGATACA
2927146 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:2927223 original size:20 final size:21
Alignment explanation
Indices: 2927176--2927228 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2927166 TCCAATGACC
2927176 TGTATCGATACATTCTATACA
1 TGTATCGATACATTCTATACA
* *
2927197 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-ATACA
2927217 TGTATCGATACA
1 TGTATCGATACA
2927229 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTATACA
Found at i:2927234 original size:13 final size:13
Alignment explanation
Indices: 2927216--2927240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2927206 ACATTTGGTC
2927216 ATGTATCGATACA
1 ATGTATCGATACA
2927229 ATGTATCGATAC
1 ATGTATCGATAC
2927241 TGTGCCATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2927839 original size:22 final size:22
Alignment explanation
Indices: 2927796--2927840 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2927786 TTTTCTGTTC
*
2927796 TCTCCCCCTTAATCATAAAATT
1 TCTCCCCCTTAATCAAAAAATT
2927818 TCTCCCCCTTAAT-AAAATAATT
1 TCTCCCCCTTAATCAAAA-AATT
2927840 T
1 T
2927841 AACAATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:2928688 original size:13 final size:13
Alignment explanation
Indices: 2928670--2928694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2928660 CATAAAGTGT
2928670 TGTATCGATACAA
1 TGTATCGATACAA
2928683 TGTATCGATACA
1 TGTATCGATACA
2928695 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2928710 original size:32 final size:33
Alignment explanation
Indices: 2928650--2928718 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
2928640 TTCAACGATT
2928650 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2928683 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2928715 TGTA
1 TGTA
2928719 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2935760 original size:14 final size:14
Alignment explanation
Indices: 2935749--2935790 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2935739 AGTCAAAAGT
*
2935749 AAACACAAAAAACA
1 AAACACAAAAAAAA
2935763 AAACA-AAAAAAAA
1 AAACACAAAAAAAA
2935776 ACAACACAAAAAAAA
1 A-AACACAAAAAAAA
2935791 GGTGCAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 9 0.36
15 8 0.32
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:2935776 original size:16 final size:16
Alignment explanation
Indices: 2935755--2935790 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2935745 AAGTAAACAC
2935755 AAAAAACAAAACAAAA
1 AAAAAACAAAACAAAA
*
2935771 AAAAAACAACACAAAA
1 AAAAAACAAAACAAAA
2935787 AAAA
1 AAAA
2935791 GGTGCAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAACAAAA
Found at i:2936073 original size:17 final size:17
Alignment explanation
Indices: 2936029--2936090 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
2936019 GTTCTTTTCC
* *
2936029 AAAAAAGAAACAAAACA
1 AAAAAAAAAAAAAAACA
*
2936046 AAAATGGAAAAAAAAAACA
1 AAAA--AAAAAAAAAAACA
* *
2936065 AAAAAAAAACACAAACA
1 AAAAAAAAAAAAAAACA
2936082 AAAAAAAAA
1 AAAAAAAAA
2936091 GGGAAAAACC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 23 0.62
19 14 0.38
ACGTcount: A:0.84, C:0.10, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACA
Found at i:2937216 original size:100 final size:96
Alignment explanation
Indices: 2937038--2937483 Score: 444
Period size: 100 Copynumber: 4.6 Consensus size: 96
2937028 TCAAATACCT
* * *
2937038 TTTTAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCAAAACTCTGTGGCACCTTCTTTT
1 TTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTT
* **
2937103 CAGAGCCCACAACTCTATGGCACTCTTTTTCCC
66 -AAAGCCCACAACTCCGTGGCACTCTTTTT-CC
* ** * * *
2937136 TTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCTACGACTCCGTGGCACCTTCTT
1 TTTTAAAGTCCACAACTCCGTGGCACCTTCTT--TTCAAAGCCCACAACTCCGTGGCACCTTCTT
2937201 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
64 TT-AAAGCCCACAACTCCGTGGCACTCTTTTT-CC
* * * * * *
2937236 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCACC--CG
1 TTTTAAAGTCCACAACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGTGGCACCTTCT
2937299 TTT-AAGCCCACAACTCCGTGGCACTCTTTTTCC
63 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
* * *
2937332 TTCT-AAGCCCACAACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-C---TT-
* * *
2937396 CCTTTTAAAGTCCACAACTCTGTGGCAC-CTTGTTCC
61 -CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
* * *
2937432 TTTT-AAGTCCACATCTCTGTGGCACC--ATTTT--AAGCCCACAACTCCGTGGCAC
1 TTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC
2937484 TCTTTTTCGT
Statistics
Matches: 303, Mismatches: 33, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
92 22 0.07
93 1 0.00
94 5 0.02
95 20 0.07
96 26 0.09
97 28 0.09
98 34 0.11
99 4 0.01
100 115 0.38
101 48 0.16
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (96 bp):
TTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTT
AAAGCCCACAACTCCGTGGCACTCTTTTTCC
Found at i:2937307 original size:61 final size:63
Alignment explanation
Indices: 2937237--2937425 Score: 285
Period size: 61 Copynumber: 3.0 Consensus size: 63
2937227 CTTTTTCCCT
2937237 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACT-TCGTGGCACC-CG
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCT-GTGGCACCTCG
* *
2937299 TTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACC-TCG
*
2937362 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACCT
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCTGTGGCACCT
2937426 TGTTCCTTTT
Statistics
Matches: 116, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
61 53 0.46
62 4 0.03
63 4 0.03
65 28 0.24
66 6 0.05
67 21 0.18
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (63 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTCG
Found at i:2937356 original size:162 final size:161
Alignment explanation
Indices: 2937145--2937491 Score: 545
Period size: 162 Copynumber: 2.2 Consensus size: 161
2937135 CTTTTAAAGT
* * * * *
2937145 CCACAACTCCGTGGCAC-CTTGTTCCTTTTAAGTCTACGACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
*
2937209 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
66 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCCTTC
*
2937274 TAAGTCCACAACT-TCGTGGCACCCGTTTAAGC
130 TAAGTCCACAACTCT-GTGGCACCAGTTTAAGC
*
2937306 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
* * *
2937371 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACCTTGTTCCTTTT
66 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTCT
* *
2937436 AAGTCCACATCTCTGTGGCACCATTTTAAGC
131 AAGTCCACAACTCTGTGGCACCAGTTTAAGC
2937467 CCACAACTCCGTGGCACTCTTTTTC
1 CCACAACTCCGTGGCACTCTTTTTC
2937492 GTACCTCTTT
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
161 78 0.46
162 93 0.54
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.32
Consensus pattern (161 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTCT
AAGTCCACAACTCTGTGGCACCAGTTTAAGC
Found at i:2937470 original size:27 final size:27
Alignment explanation
Indices: 2937432--2937483 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
2937422 ACCTTGTTCC
* * *
2937432 TTTTAAGTCCACATCTCTGTGGCACCA
1 TTTTAAGCCCACAACTCCGTGGCACCA
2937459 TTTTAAGCCCACAACTCCGTGGCAC
1 TTTTAAGCCCACAACTCCGTGGCAC
2937484 TCTTTTTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (27 bp):
TTTTAAGCCCACAACTCCGTGGCACCA
Found at i:2937489 original size:27 final size:26
Alignment explanation
Indices: 2937430--2937489 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
2937420 GCACCTTGTT
* * *
2937430 CCTTTTAAGTCCACATCTCTGTGGCA
1 CCTTTTAAGCCCACAACTCCGTGGCA
2937456 CCATTTTAAGCCCACAACTCCGTGGCA
1 CC-TTTTAAGCCCACAACTCCGTGGCA
2937483 CTCTTTT
1 C-CTTTT
2937490 TCGTACCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (26 bp):
CCTTTTAAGCCCACAACTCCGTGGCA
Found at i:2938682 original size:21 final size:20
Alignment explanation
Indices: 2938652--2938695 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2938642 GTTGCTAGTG
*
2938652 TGGGGCTGCCCGGTTGCGACC
1 TGGGGCTG-CCGGTCGCGACC
*
2938673 TGGGGGTGCCGGTCGCGACC
1 TGGGGCTGCCGGTCGCGACC
2938693 TGG
1 TGG
2938696 TGAGTGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.05, C:0.30, G:0.48, T:0.18
Consensus pattern (20 bp):
TGGGGCTGCCGGTCGCGACC
Found at i:2939390 original size:8 final size:8
Alignment explanation
Indices: 2939377--2939402 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2939367 AACATCATTC
2939377 ATCACAAA
1 ATCACAAA
2939385 ATCACAAA
1 ATCACAAA
2939393 ATCACAAA
1 ATCACAAA
2939401 AT
1 AT
2939403 TTAATCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:2945365 original size:19 final size:20
Alignment explanation
Indices: 2945324--2945371 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2945314 AAGCCAATGA
*
2945324 ATCGATACATTTTGGGATGT
1 ATCGATACATCTTGGGATGT
*
2945344 ATCGATACATCTTGTG-TGT
1 ATCGATACATCTTGGGATGT
2945363 ATCGATACA
1 ATCGATACA
2945372 AACAGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
ATCGATACATCTTGGGATGT
Found at i:2945460 original size:20 final size:21
Alignment explanation
Indices: 2945413--2945465 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2945403 GCCAATGACC
*
2945413 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
2945434 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
2945454 TGTATCGATACA
1 TGTATCGATACA
2945466 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:2945471 original size:13 final size:13
Alignment explanation
Indices: 2945453--2945477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2945443 ACATTTGGTC
2945453 ATGTATCGATACA
1 ATGTATCGATACA
2945466 ATGTATCGATAC
1 ATGTATCGATAC
2945478 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2946958 original size:33 final size:33
Alignment explanation
Indices: 2946921--2946987 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2946911 TTCAACGATT
2946921 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2946954 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2946987 T
1 T
2946988 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2946959 original size:13 final size:13
Alignment explanation
Indices: 2946941--2946965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2946931 CATAAAATGT
2946941 TGTATCGATACAA
1 TGTATCGATACAA
2946954 TGTATCGATACA
1 TGTATCGATACA
2946966 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2947048 original size:13 final size:13
Alignment explanation
Indices: 2947030--2947054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2947020 ATTACTCACA
2947030 TGTATCGATACAT
1 TGTATCGATACAT
2947043 TGTATCGATACA
1 TGTATCGATACA
2947055 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2947119 original size:52 final size:52
Alignment explanation
Indices: 2947063--2947182 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
2947053 CACTGATCTT
*
2947063 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2947115 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2947167 TGTATAGATACATGCA
1 TGTATCGATACATGCA
2947183 AGAAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2953260 original size:13 final size:13
Alignment explanation
Indices: 2953242--2953266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2953232 ATAATGCACA
2953242 GTATCGATACATT
1 GTATCGATACATT
2953255 GTATCGATACAT
1 GTATCGATACAT
2953267 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2953379 original size:15 final size:14
Alignment explanation
Indices: 2953359--2953391 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2953349 GTATCGATAC
2953359 ATACAAGATGTATCG
1 ATACAA-ATGTATCG
2953374 ATAC-AATGTATCG
1 ATACAAATGTATCG
2953387 ATACA
1 ATACA
2953392 TGACCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 1 0.06
15 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (14 bp):
ATACAAATGTATCG
Found at i:2953384 original size:13 final size:13
Alignment explanation
Indices: 2953366--2953391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2953356 TACATACAAG
2953366 ATGTATCGATACA
1 ATGTATCGATACA
2953379 ATGTATCGATACA
1 ATGTATCGATACA
2953392 TGACCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2953410 original size:34 final size:32
Alignment explanation
Indices: 2953348--2953412 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
2953338 CTTAATTGCT
2953348 TGTATCGATACATACAAGATGTATCGATACAA
1 TGTATCGATACATACAAGATGTATCGATACAA
2953380 TGTATCGATACATGACCAA-ATTGTATCGATACA
1 TGTATCGATACAT-A-CAAGA-TGTATCGATACA
2953413 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 2 0.07
34 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATACAAGATGTATCGATACAA
Found at i:2957703 original size:13 final size:13
Alignment explanation
Indices: 2957685--2957709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2957675 CATAAAGTGT
2957685 TGTATCGATACAA
1 TGTATCGATACAA
2957698 TGTATCGATACA
1 TGTATCGATACA
2957710 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2957720 original size:32 final size:32
Alignment explanation
Indices: 2957665--2957762 Score: 162
Period size: 32 Copynumber: 3.0 Consensus size: 32
2957655 TTCAACGATT
2957665 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
2957698 TGTATCGATACATAAGTGTTGTATC-AGTACAA
1 TGTATCGATACATAAGTGTTGTATCGA-TACAA
*
2957730 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2957762 T
1 T
2957763 TTAAGCTACT
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
31 1 0.02
32 47 0.76
33 14 0.23
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2957722 original size:19 final size:18
Alignment explanation
Indices: 2957663--2957760 Score: 74
Period size: 19 Copynumber: 5.8 Consensus size: 18
2957653 ATTTCAACGA
2957663 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
2957682 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2957698 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2957714 TGTTGTATC-AGTAC--AA-
1 T-TTGTATCGA-TACATAAG
2957730 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2957746 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2957761 ATTTAAGCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 30
0.68 0.00 0.32
Matches are distributed among these distances:
13 20 0.31
14 1 0.02
15 4 0.06
17 4 0.06
18 1 0.02
19 22 0.34
20 12 0.19
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2957821 original size:13 final size:13
Alignment explanation
Indices: 2957803--2957827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2957793 ATTACTCAAA
2957803 TGTATCGATACAT
1 TGTATCGATACAT
2957816 TGTATCGATACA
1 TGTATCGATACA
2957828 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2957965 original size:52 final size:52
Alignment explanation
Indices: 2957836--2957966 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
2957826 CACTGATCTT
*
2957836 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACCATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACCATAAAA
* *
2957888 TGTATCGATACATGCAAGCAAATTTTCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACCATAAAA
2957940 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
2957967 ATATTTCGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACCATAAAA
Found at i:2961895 original size:20 final size:20
Alignment explanation
Indices: 2961872--2961944 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2961862 ACAATTCAAA
2961872 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2961892 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
2961913 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2961933 GTATCGATACAT
1 GTATCGATACAT
2961945 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2961923 original size:41 final size:42
Alignment explanation
Indices: 2961872--2961966 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
2961862 ACAATTCAAA
*
2961872 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2961913 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2961955 GTATCGATACAT
1 GTATCGATACAT
2961967 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 38 0.73
42 14 0.27
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:2962023 original size:13 final size:13
Alignment explanation
Indices: 2962005--2962030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2961995 TACAGCAAGT
2962005 ATGTATCGATACA
1 ATGTATCGATACA
2962018 ATGTATCGATACA
1 ATGTATCGATACA
2962031 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2966112 original size:15 final size:15
Alignment explanation
Indices: 2966092--2966122 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2966082 TAAAAATGTC
*
2966092 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2966107 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2966122 C
1 C
2966123 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2968200 original size:13 final size:13
Alignment explanation
Indices: 2968182--2968220 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2968172 ACATTTTTCC
2968182 TTGTATCGATACA
1 TTGTATCGATACA
2968195 TTGTATCGATACA
1 TTGTATCGATACA
*
2968208 CTGTATCGATACA
1 TTGTATCGATACA
2968221 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2970689 original size:20 final size:20
Alignment explanation
Indices: 2970666--2970738 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2970656 ACAATTCAAA
2970666 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2970686 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
2970707 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2970727 GTATCGATACAT
1 GTATCGATACAT
2970739 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Done.