Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold6
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: 4312818
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 226954 characters in sequence are not A, C, G, or T
File 3 of 14
Found at i:782226 original size:20 final size:20
Alignment explanation
Indices: 782201--782242 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
782191 TGAACCCTTC
782201 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
*
782221 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
782241 CA
1 CA
782243 ACTTTATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:783178 original size:45 final size:45
Alignment explanation
Indices: 783119--783320 Score: 305
Period size: 45 Copynumber: 4.5 Consensus size: 45
783109 GTGCCATGGT
* *
783119 GTCTTTCAACCATGGTCTTACTTGATAAAATAGTGATGCCATAAC
1 GTCTTTCAATCATGGTCTTACTTGATAGAATAGTGATGCCATAAC
* *
783164 GTCTTTCAATCATGGTCTTACTCGATAGAATAGTAATGCCATAAC
1 GTCTTTCAATCATGGTCTTACTTGATAGAATAGTGATGCCATAAC
* * *
783209 GTCTTTCAGTTATGGTCTTACTTGACAGAATAGTGATGCCATAAC
1 GTCTTTCAATCATGGTCTTACTTGATAGAATAGTGATGCCATAAC
* * *
783254 GTCTTTTAGTCGTGGTCTTACTTGATAGAATAGTGATGCCATAAC
1 GTCTTTCAATCATGGTCTTACTTGATAGAATAGTGATGCCATAAC
*
783299 GTCTTTCAATAATGGTCTTACT
1 GTCTTTCAATCATGGTCTTACT
783321 CGTTTCTAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 140 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (45 bp):
GTCTTTCAATCATGGTCTTACTTGATAGAATAGTGATGCCATAAC
Found at i:790547 original size:11 final size:12
Alignment explanation
Indices: 790527--790552 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
790517 GTGCGTTCCC
790527 TTTTCTTTTTTT
1 TTTTCTTTTTTT
790539 TTTTCTTTTTTT
1 TTTTCTTTTTTT
790551 TT
1 TT
790553 CTATTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:803854 original size:18 final size:18
Alignment explanation
Indices: 803816--803855 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
803806 GAACCATCTT
*
803816 AGAAATCAAATATCTTTC
1 AGAAATCAAATATCTTAC
803834 AGAAATCAAAGTATC-TAC
1 AGAAATCAAA-TATCTTAC
803852 AGAA
1 AGAA
803856 GTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (18 bp):
AGAAATCAAATATCTTAC
Found at i:805035 original size:15 final size:15
Alignment explanation
Indices: 804970--805045 Score: 61
Period size: 15 Copynumber: 5.1 Consensus size: 15
804960 TTCTTCAATT
*
804970 TCTTTTTCGATTTTC
1 TCTTTTTCAATTTTC
*
804985 TCTTTTTC-A-CTTC
1 TCTTTTTCAATTTTC
804998 -CTTTTTCAATCTCAATT-
1 TCTTTTTCAAT-T---TTC
805015 TCTTTTTCAATTTTC
1 TCTTTTTCAATTTTC
*
805030 TCTTTTTCAAATTTC
1 TCTTTTTCAATTTTC
805045 T
1 T
805046 TTTCTTTCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
12 7 0.14
13 4 0.08
14 3 0.06
15 23 0.46
17 1 0.02
18 12 0.24
ACGTcount: A:0.14, C:0.22, G:0.01, T:0.62
Consensus pattern (15 bp):
TCTTTTTCAATTTTC
Found at i:805056 original size:45 final size:44
Alignment explanation
Indices: 804950--805056 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 44
804940 CCTAACTCGT
* * *
804950 TTTCTCTTCTTTCTTCAATTTCTTTTTCGATTTTCTCTTTTTCAC
1 TTTCTTTTCTTTC-TCAATTTCTTTTTCAATTTTCTCTTTTTCAA
* **
804995 TTCCTTTTTCAATCTCAATTTCTTTTTCAATTTTCTCTTTTTCAAA
1 TTTC-TTTTCTTTCTCAATTTCTTTTTCAATTTTCTCTTTTTC-AA
805041 TTTCTTTTCTTTCTCA
1 TTTCTTTTCTTTCTCA
805057 CACTCATCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
45 41 0.80
46 10 0.20
ACGTcount: A:0.13, C:0.23, G:0.01, T:0.63
Consensus pattern (44 bp):
TTTCTTTTCTTTCTCAATTTCTTTTTCAATTTTCTCTTTTTCAA
Found at i:815095 original size:53 final size:53
Alignment explanation
Indices: 815037--815144 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
815027 ATATGGCACT
* *
815037 AAAGAAGAACATATCGTGTAA-GACCATAACTAGTGGGTTATGGCATCATATGG
1 AAAGAAGAACATATCGTGTAATG-CCATAACTAGTGAGTTATGACATCATATGG
* * *
815090 AAAGAAGACCATATCGTGTAATGCCGTAACTGGTGAGTTATGACATCATATGG
1 AAAGAAGAACATATCGTGTAATGCCATAACTAGTGAGTTATGACATCATATGG
815143 AA
1 AA
815145 GAATTTAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
53 48 0.98
54 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (53 bp):
AAAGAAGAACATATCGTGTAATGCCATAACTAGTGAGTTATGACATCATATGG
Found at i:816343 original size:15 final size:15
Alignment explanation
Indices: 816323--816355 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
816313 GCCCTATAAC
*
816323 AAGTTATATAACAAT
1 AAGTTAAATAACAAT
816338 AAGTTAAATAACAAT
1 AAGTTAAATAACAAT
816353 AAG
1 AAG
816356 CACACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (15 bp):
AAGTTAAATAACAAT
Found at i:822222 original size:26 final size:26
Alignment explanation
Indices: 822186--822239 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
822176 TCTAGTTCGA
*
822186 CAGTCAACCATAGCATTGTGCCTTGT
1 CAGTCAACCATAGCATTGTGCATTGT
822212 CAGTCAACCATAGCATTGTGCATTGT
1 CAGTCAACCATAGCATTGTGCATTGT
822238 CA
1 CA
822240 ACCTATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (26 bp):
CAGTCAACCATAGCATTGTGCATTGT
Found at i:828812 original size:12 final size:12
Alignment explanation
Indices: 828791--828831 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
828781 AATCTTAAGG
*
828791 GTAATGTTCAAT
1 GTAATATTCAAT
828803 GTAATATTCAAT
1 GTAATATTCAAT
*
828815 GTGATATTCAAT
1 GTAATATTCAAT
828827 GTAAT
1 GTAAT
828832 GTTCTTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (12 bp):
GTAATATTCAAT
Found at i:834021 original size:41 final size:42
Alignment explanation
Indices: 833960--834042 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 42
833950 GCATTTCTTT
833960 GTTTTGTTAGAGTATGCCCAAAGATCAATCATGAGATGGTTG
1 GTTTTGTTAGAGTATGCCCAAAGATCAATCATGAGATGGTTG
834002 GTTTTGTTAG-GTATGCCCAAAGATCAATCATGAGATGGTTG
1 GTTTTGTTAGAGTATGCCCAAAGATCAATCATGAGATGGTTG
834043 TAATAACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 31 0.76
42 10 0.24
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (42 bp):
GTTTTGTTAGAGTATGCCCAAAGATCAATCATGAGATGGTTG
Found at i:845381 original size:42 final size:41
Alignment explanation
Indices: 845240--845499 Score: 231
Period size: 42 Copynumber: 6.2 Consensus size: 41
845230 CTCAGTGGAT
* * * *
845240 TCAGCACTTAGCAACCACC-TTAAATTTAGTGATAAGGGGAA
1 TCAGCACATAGCAACC-CCTTTACATTCAGTGATACGGGGAA
* **
845281 TCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACATAGCAACCCCTTT-ACATTCAGTGATACGG-GGAA
* * *
845324 TCAACACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTACATTCAGTGATACGGGGAA
* * *
845366 TCAGCACATAACAACCCCTTTCACAATCAAAT-ATACGGTGGAA
1 TCAGCACATAGCAACCCCTTT-ACATTC-AGTGATACGG-GGAA
* * *
845409 T-AGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAA
1 TCAGCACATAGCAACC-CCTTTACATTCAGTGATACGGGGAA
* *
845450 TCAGCACATAGCAACCCCTTTCACAATCAAAT-ATACGGTGGAA
1 TCAGCACATAGCAACCCCTTT-ACATTC-AGTGATACGG-GGAA
845493 TCAGCAC
1 TCAGCAC
845500 TTAGAAAACC
Statistics
Matches: 176, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.01
41 34 0.19
42 80 0.45
43 55 0.31
44 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
TCAGCACATAGCAACCCCTTTACATTCAGTGATACGGGGAA
Found at i:845425 original size:84 final size:85
Alignment explanation
Indices: 845234--845503 Score: 454
Period size: 84 Copynumber: 3.2 Consensus size: 85
845224 CCGTTACTCA
* * * *
845234 GTGGATTCAGCACTTAGCAACCACC-TTAAATTTAGTGATAAGGGGAATCAGCACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCC
*
845298 CTTTCACAATCAAAGATACG
66 CTTTCACAATCAAATATACG
* *
845318 GTGGAATCAACACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAACAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCC
845383 CTTTCACAATCAAATATACG
66 CTTTCACAATCAAATATACG
*
845403 GTGGAAT-AGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCC
845467 CTTTCACAATCAAATATACG
66 CTTTCACAATCAAATATACG
845487 GTGGAATCAGCACTTAG
1 GTGGAATCAGCACTTAG
845504 AAAACCCTCG
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
84 104 0.60
85 70 0.40
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (85 bp):
GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCC
CTTTCACAATCAAATATACG
Found at i:849279 original size:29 final size:29
Alignment explanation
Indices: 849243--849425 Score: 131
Period size: 29 Copynumber: 6.6 Consensus size: 29
849233 TCCTTTCCAA
849243 AGATAGCCACAAAGGCATCCTTTCAA-TAG
1 AGATAGCCACAAAGGCATCCTTT-AACTAG
* *
849272 AGATAGCCACAAAGGCTTTCTTT---TAG
1 AGATAGCCACAAAGGCATCCTTTAACTAG
849298 CAG--A---ACAAAGGCATCCATTTAACT-G
1 -AGATAGCCACAAAGGCATCC-TTTAACTAG
*
849323 AGATAGCCATAAAGGCATCCATTTAACT-G
1 AGATAGCCACAAAGGCATCC-TTTAACTAG
* *
849352 AAATAGCCACAAAGGCATTCATTTAACTA-
1 AGATAGCCACAAAGGCA-TCCTTTAACTAG
* * ** *
849381 AGATAGCCATAAAGGCTTATTTGTAAC-AA
1 AGATAGCCACAAAGGCATCCTT-TAACTAG
849410 AGATAGCCACAAAGGC
1 AGATAGCCACAAAGGC
849426 TACCATTTAG
Statistics
Matches: 126, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
22 10 0.08
23 3 0.02
24 2 0.02
25 2 0.02
26 5 0.04
27 2 0.02
28 4 0.03
29 96 0.76
30 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (29 bp):
AGATAGCCACAAAGGCATCCTTTAACTAG
Found at i:849416 original size:58 final size:58
Alignment explanation
Indices: 849302--849434 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 58
849292 TTTTAGCAGA
* *
849302 ACAAAGGCATCCATTTAACTGAGATAGCCATAAAGGCATCCATTTAACTGAAATAGCC
1 ACAAAGGCATCCATTTAACTAAGATAGCCATAAAGGCATCCATTTAACTAAAATAGCC
* *
849360 ACAAAGGCATTCATTTAACTAAGATAGCCATAAAGGC-T-TATTTGTAAC-AAAGATAGCC
1 ACAAAGGCATCCATTTAACTAAGATAGCCATAAAGGCATCCA-TT-TAACTAAA-ATAGCC
849418 ACAAAGGC-TACCATTTA
1 ACAAAGGCAT-CCATTTA
849435 GAGATACCCA
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.02
57 6 0.09
58 59 0.89
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (58 bp):
ACAAAGGCATCCATTTAACTAAGATAGCCATAAAGGCATCCATTTAACTAAAATAGCC
Found at i:854861 original size:48 final size:49
Alignment explanation
Indices: 854784--854905 Score: 126
Period size: 48 Copynumber: 2.5 Consensus size: 49
854774 CAACATATCA
* * *
854784 GTGGACGAAGCCACCAAATTC-AAAGACAAGCTGCC-AGTACATATA-GTT
1 GTGGACAAAGCCACCAAATTCGCAA-ACAAGCTGCCGA-AACATATAGGTT
* *
854832 GTGGACAAAGCCACCAAATTCGCAAACAAGGTGCCGAAACATGTAGGTT
1 GTGGACAAAGCCACCAAATTCGCAAACAAGCTGCCGAAACATATAGGTT
* * *
854881 GTGGATAAA-CCATCAAATTTGCAAA
1 GTGGACAAAGCCACCAAATTCGCAAA
854906 TTACTACTGC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
48 49 0.78
49 14 0.22
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (49 bp):
GTGGACAAAGCCACCAAATTCGCAAACAAGCTGCCGAAACATATAGGTT
Found at i:859229 original size:7 final size:7
Alignment explanation
Indices: 859217--859251 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
859207 AATACAATAA
859217 ATTGATT
1 ATTGATT
859224 ATTGATT
1 ATTGATT
859231 ATTGATT
1 ATTGATT
859238 ATT-ATT
1 ATTGATT
*
859244 ATTAATT
1 ATTGATT
859251 A
1 A
859252 CCCTTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (7 bp):
ATTGATT
Found at i:863898 original size:24 final size:24
Alignment explanation
Indices: 863863--863920 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
863853 CTTGATCAAT
*
863863 CATATCCCACTACATGGATTGTGG
1 CATATCCAACTACATGGATTGTGG
* *
863887 TATATCCAACTACGTGGATTGTGG
1 CATATCCAACTACATGGATTGTGG
863911 CATATCCAAC
1 CATATCCAAC
863921 ATTAGTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (24 bp):
CATATCCAACTACATGGATTGTGG
Found at i:865535 original size:28 final size:28
Alignment explanation
Indices: 865502--865557 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
865492 TTTGATCACA
* *
865502 TCATTAAAATAAAGATTCCAACTTCGAG
1 TCATTAAAACAAAGATTCCAAATTCGAG
*
865530 TCATTAAAACGAAGATTCCAAATTCGAG
1 TCATTAAAACAAAGATTCCAAATTCGAG
865558 AAGCTTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (28 bp):
TCATTAAAACAAAGATTCCAAATTCGAG
Found at i:866731 original size:23 final size:23
Alignment explanation
Indices: 866705--866752 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
866695 AATCAGCTTC
866705 TTTAATAC-ACCTATTAGGACACA
1 TTTAA-ACGACCTATTAGGACACA
*
866728 TTTAAACGACTTATTAGGACACA
1 TTTAAACGACCTATTAGGACACA
866751 TT
1 TT
866753 AATCATACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (23 bp):
TTTAAACGACCTATTAGGACACA
Found at i:870519 original size:73 final size:73
Alignment explanation
Indices: 870400--870547 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
870390 TAATCAACAT
*
870400 TTAAGTGATTATAGTTCATACGAACTTACCTGTCTAAATTGAACAAAGACTAAGTACAAGGGCTA
1 TTAAGTGATTATAGTTCATACGAACTTACCTATCTAAATTGAACAAAGACTAAGTACAAGGGCTA
870465 TTTGGTAA
66 TTTGGTAA
870473 TTAAGTGATTATAGTTCATACGAACTTACCTATCTAAATTGAACAAAGACTAAGTACAAGGGCTA
1 TTAAGTGATTATAGTTCATACGAACTTACCTATCTAAATTGAACAAAGACTAAGTACAAGGGCTA
870538 TTTGGTAA
66 TTTGGTAA
870546 TT
1 TT
870548 TTCTCTTCTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (73 bp):
TTAAGTGATTATAGTTCATACGAACTTACCTATCTAAATTGAACAAAGACTAAGTACAAGGGCTA
TTTGGTAA
Found at i:875013 original size:29 final size:29
Alignment explanation
Indices: 874981--875059 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
874971 CATTCCTTTG
* * * * *
874981 AACATAGATAGCCGCAAATGTTTTTTTAT
1 AACATAGATAGCCACAAAGGCTTTCTCAT
*
875010 AACAGAGATAGCCACAAAGGCTTTCTCAT
1 AACATAGATAGCCACAAAGGCTTTCTCAT
*
875039 AACATAGATCGCCACAAAGGC
1 AACATAGATAGCCACAAAGGC
875060 ATTCATTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (29 bp):
AACATAGATAGCCACAAAGGCTTTCTCAT
Found at i:875070 original size:29 final size:30
Alignment explanation
Indices: 875009--875114 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 30
874999 TGTTTTTTTA
* *
875009 TAACA-GAGATAGCCACAAAGGCTTTC-TCA
1 TAACATGAGATAGCCACAAAGGCATTCAT-T
*
875038 TAACAT-AGATCGCCACAAAGGCATTCATT
1 TAACATGAGATAGCCACAAAGGCATTCATT
* * *
875067 TAAC-TGATATAGCCAGAAAGGCATTCAAT
1 TAACATGAGATAGCCACAAAGGCATTCATT
*
875096 TAA-ATGAGATTGCCACAAA
1 TAACATGAGATAGCCACAAA
875115 TGAATTAAGT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.02
29 61 0.97
30 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.23
Consensus pattern (30 bp):
TAACATGAGATAGCCACAAAGGCATTCATT
Found at i:876698 original size:19 final size:19
Alignment explanation
Indices: 876674--876713 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
876664 TCCAGTTCTA
876674 ATGTTGGACACTTAAAACT
1 ATGTTGGACACTTAAAACT
876693 ATGTTGGACACTTAAAACT
1 ATGTTGGACACTTAAAACT
876712 AT
1 AT
876714 CCTCTTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
ATGTTGGACACTTAAAACT
Found at i:881603 original size:32 final size:32
Alignment explanation
Indices: 881565--881630 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
881555 ACCAGAGATT
881565 GAAAAATAACAGATGACTTTAGTAGCCAATGG
1 GAAAAATAACAGATGACTTTAGTAGCCAATGG
*
881597 GAAAAATAACAGATGACTTTAGTAGTCAATGG
1 GAAAAATAACAGATGACTTTAGTAGCCAATGG
881629 GA
1 GA
881631 TAGTGTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (32 bp):
GAAAAATAACAGATGACTTTAGTAGCCAATGG
Found at i:885052 original size:17 final size:15
Alignment explanation
Indices: 885018--885058 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
885008 TTTTTTAAAC
885018 AAAAGAAAAAAAATA
1 AAAAGAAAAAAAATA
*
885033 AAAAGAAAAGACACATA
1 AAAAGAAAA-A-AAATA
885050 AAAAGAAAA
1 AAAAGAAAA
885059 CAGAGAGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 1 0.04
17 13 0.57
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAAAAATA
Found at i:885609 original size:19 final size:18
Alignment explanation
Indices: 885571--885611 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
885561 CCTTGGTGGT
*
885571 GGCGTGGTTCGGCTCGGA
1 GGCGTGGTTCGGCGCGGA
*
885589 GGCGTGGCTTTGGCGCGGA
1 GGCGTGG-TTCGGCGCGGA
885608 GGCG
1 GGCG
885612 CAACACGCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.05, C:0.22, G:0.54, T:0.20
Consensus pattern (18 bp):
GGCGTGGTTCGGCGCGGA
Found at i:891016 original size:137 final size:138
Alignment explanation
Indices: 890768--891034 Score: 317
Period size: 137 Copynumber: 1.9 Consensus size: 138
890758 AAAATGGGCC
* * * * * * *
890768 TGCTCACACAAGTTGTCGGTCGGAATGTAAGCTAGACGATGCTGCTCACACAAGCTGTCGAGTAT
1 TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATGCTGCTCACACAAGCTATCAAGTAT
* * * *
890833 CCGCAACTAATGTTGGACCTCAGCCATCAGTAGGACATTCAAGACCAGCACCTGAAACATGGTAA
66 CCGCAACTAATGTTGAAACTCAGCCATCAGTAGGACATTCAAGACCAACACCCGAAACATGGTAA
890898 TATCGGTT
131 TATCGGTT
* * *
890906 TGCTCACACAGGCTATCAGTCGGAACGT-AGCTACACGGTGCTGCTCATACAAGCTATCAAGTAT
1 TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATGCTGCTCACACAAGCTATCAAGTAT
* * * *
890970 CCGCAAC-ACAT-TTCGAAACTCATCCA-CCGCTAGGACGTTCAGGACCAACACCCGAAACATGG
66 CCGCAACTA-ATGTT-GAAACTCAGCCATCAG-TAGGACATTCAAGACCAACACCCGAAACATGG
891032 TAA
128 TAA
891035 CCCTAATGGC
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
136 5 0.05
137 80 0.74
138 23 0.21
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (138 bp):
TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATGCTGCTCACACAAGCTATCAAGTAT
CCGCAACTAATGTTGAAACTCAGCCATCAGTAGGACATTCAAGACCAACACCCGAAACATGGTAA
TATCGGTT
Found at i:894155 original size:20 final size:20
Alignment explanation
Indices: 894091--894261 Score: 109
Period size: 20 Copynumber: 8.6 Consensus size: 20
894081 ATTATTGTAG
*
894091 GATTGCACTTACGTGCCACT
1 GATTGCACTTACGTGCCCCT
* * *
894111 GTTTGTACTT-CGTACCCCT
1 GATTGCACTTACGTGCCCCT
894130 GATTGCACTTACGTGCCCCT
1 GATTGCACTTACGTGCCCCT
*
894150 -ATTTGCACTT-CGATACCCCT
1 GA-TTGCACTTACG-TGCCCCT
*
894170 GATTGCACTTACGTGCCTCT
1 GATTGCACTTACGTGCCCCT
* * * **
894190 GTTTGTACTT-TGATAACCCT
1 GATTGCACTTACG-TGCCCCT
* *
894210 GATTGCGCTTACATGCCCCT
1 GATTGCACTTACGTGCCCCT
* * * *
894230 GTTTGTAATT-CGGTACCCCT
1 GATTGCACTTAC-GTGCCCCT
*
894250 GATTCCACTTAC
1 GATTGCACTTAC
894262 ATACACCTAT
Statistics
Matches: 109, Mismatches: 33, Indels: 17
0.69 0.21 0.11
Matches are distributed among these distances:
19 20 0.18
20 85 0.78
21 4 0.04
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (20 bp):
GATTGCACTTACGTGCCCCT
Found at i:894178 original size:40 final size:40
Alignment explanation
Indices: 894091--894309 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 40
894081 ATTATTGTAG
*
894091 GATTGCACTTACGTGCCACTGTTTGTACTTCG-TACCCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT
* *
894130 GATTGCACTTACGTGCCCCTATTTGCACTTCGATACCCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT
* * *
894170 GATTGCACTTACGTGCCTCTGTTTGTACTTTGATAACCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT
* * * *
894210 GATTGCGCTTACATGCCCCTGTTTGTAATTCGGTACCCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT
* * * * * * * *
894250 GATTCCACTTACATACACCTATTTGTACTTTGGTACCTCT
1 GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT
* *
894290 AAATGCACTTACGTGCCCCT
1 GATTGCACTTACGTGCCCCT
894310 TTTTATTCTC
Statistics
Matches: 150, Mismatches: 29, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 29 0.19
40 121 0.81
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (40 bp):
GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT
Found at i:898508 original size:26 final size:23
Alignment explanation
Indices: 898463--898509 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
898453 ATTGCAATGA
898463 ATCAATTAAAACTAATTAAAACT
1 ATCAATTAAAACTAATTAAAACT
898486 ATCAATTAATTAAGCTAATTAAAA
1 ATCAATTAA--AA-CTAATTAAAA
898510 GAAATGCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
25 2 0.10
26 10 0.48
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (23 bp):
ATCAATTAAAACTAATTAAAACT
Found at i:898650 original size:17 final size:18
Alignment explanation
Indices: 898628--898664 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
898618 GTCTTCTGGA
898628 TAATTA-TGATATTTA-TT
1 TAATTATTGA-ATTTACTT
898645 TAATTATTGAATTTACTT
1 TAATTATTGAATTTACTT
898663 TA
1 TA
898665 CAAGTGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TAATTATTGAATTTACTT
Found at i:899432 original size:16 final size:16
Alignment explanation
Indices: 899413--899443 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
899403 CCTCGATCGA
899413 GGATCTATTCGACTAT
1 GGATCTATTCGACTAT
899429 GGATCTATTCGACTA
1 GGATCTATTCGACTA
899444 CAGCATTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (16 bp):
GGATCTATTCGACTAT
Found at i:919713 original size:53 final size:53
Alignment explanation
Indices: 919646--919798 Score: 209
Period size: 53 Copynumber: 2.9 Consensus size: 53
919636 GGCACTAAAG
* *
919646 GACCATATCCTGTAAGGTCGTAACTGGTTGGTTATGGCATCATATGGGAAGAA
1 GACCATATCATGTAAGGTCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
* * *
919699 GACCATATCATGTAA-GACTGTAACTAGTGGGTTATGACATCATATGGGAAGAA
1 GACCATATCATGTAAGGTC-GTAACTGGTGGGTTATGGCATCATATGGGAAGAA
* * * *
919752 GAACATATCATGTAAGATCATAACTGGTGGGTTATAGCATCATATGG
1 GACCATATCATGTAAGGTCGTAACTGGTGGGTTATGGCATCATATGG
919799 AGAAATTTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.02
53 83 0.97
54 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (53 bp):
GACCATATCATGTAAGGTCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
Found at i:922479 original size:27 final size:26
Alignment explanation
Indices: 922328--922501 Score: 123
Period size: 27 Copynumber: 6.4 Consensus size: 26
922318 AAAGGCATCC
* * *
922328 CTTTTAGAGTTCGCAACAAAGGTTATT
1 CTTTCAGAGTTCGCCACAAA-GCTATT
* * * *
922355 CTTTCAAAGTTTGCCGCAAAGTCTACT
1 CTTTCAGAGTTCGCCACAAAG-CTATT
* * *
922382 CTTTCAGAGTTTGCCATAAAACTCTATT
1 CTTTCAGAGTTCGCCA-CAAA-GCTATT
* *
922410 CTTTCAGAGTTCGTCATAAACGCTATT
1 CTTTCAGAGTTCGCCACAAA-GCTATT
* *
922437 CTTTCAAAGTTTGCCACAAATGCTATT
1 CTTTCAGAGTTCGCCACAAA-GCTATT
* *
922464 CTTTTAGAGTACGCCACAAAGACTATT
1 CTTTCAGAGTTCGCCACAAAG-CTATT
* *
922491 CATTAAGAGTT
1 CTTTCAGAGTT
922502 TGTCATAGAG
Statistics
Matches: 115, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
26 2 0.02
27 92 0.80
28 21 0.18
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (26 bp):
CTTTCAGAGTTCGCCACAAAGCTATT
Found at i:934379 original size:50 final size:51
Alignment explanation
Indices: 934262--934496 Score: 230
Period size: 50 Copynumber: 4.6 Consensus size: 51
934252 ACATGCGAAA
** * *
934262 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCGTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATCT-CGGTGCCAAT
* * * * *
934311 GCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATCTCGGTGCCAAT
* *
934361 GCCATGTCCCAGACATGGTTTTACGA-GGGACC-TCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTTCTCATCTCGGTGCCAAT
* * * *
934411 ACCATATCCCAGACATGGTCTTACATGGGACCTATCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TCATCTC---GGTGCCAAT
934467 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
934497 TCTCTTATCT
Statistics
Matches: 154, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.03
49 33 0.21
50 73 0.47
51 1 0.01
52 2 0.01
53 6 0.04
56 35 0.23
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATCTCGGTGCCAAT
Found at i:934449 original size:100 final size:103
Alignment explanation
Indices: 934262--934516 Score: 268
Period size: 106 Copynumber: 2.5 Consensus size: 103
934252 ACATGCGAAA
** * * * * ** *
934262 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCGTGT-ACTGCCAATGCCATATCCCAGATA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGCCAACACCATATCCCAGACA
** * * *
934326 TGGTCTTACATGGGAGTTCTCAT-A-TC-GGTGCCCAT
66 TGGTCTTACATGGGACCTATCATAACTCAGATGCCAAT
* **
934361 GCCATGTCCCAGACATGGTTTTACGA-GGGACCTCTCATCTCGGTGCCAACACCATATCCCAGAC
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCAATGCCAACACCATATCCCAGAC
934425 ATGGTCTTACATGGGACCTATCATAATCTCAATGATGCCAAT
65 ATGGTCTTACATGGGACCTATCATAA-CTC-A-GATGCCAAT
* *
934467 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTTATCTCAATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGCCAAC
934517 TATCCATACA
Statistics
Matches: 126, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
99 32 0.25
100 40 0.32
101 1 0.01
103 2 0.02
105 1 0.01
106 50 0.40
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (103 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGCCAACACCATATCCCAGACA
TGGTCTTACATGGGACCTATCATAACTCAGATGCCAAT
Found at i:934864 original size:30 final size:30
Alignment explanation
Indices: 934830--934886 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
934820 CCTCGAATCT
934830 AACTTTGACAAAATTACAATTTTGCCCTTA
1 AACTTTGACAAAATTACAATTTTGCCCTTA
* * * *
934860 AACTTTTACATATTTACACTTTTGCCC
1 AACTTTGACAAAATTACAATTTTGCCC
934887 CAAAGCTCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCTTA
Found at i:941505 original size:49 final size:50
Alignment explanation
Indices: 941441--941568 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 50
941431 TAATAACATG
* * *
941441 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATTTTTC-T-T-GTACTA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGT--TA
* **
941490 CCAATGCCATATCCCAGGTATGGTCTTACATGGGAGTTCTCATATCGTTA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTTA
*
941540 CCCATGCCATGTCCCAGACATGGTCTTAC
1 CCAATGCCATGTCCCAGACATGGTCTTAC
941569 GGGGAACCTC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
49 35 0.53
50 28 0.42
51 1 0.02
52 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTTA
Found at i:944864 original size:13 final size:13
Alignment explanation
Indices: 944843--944885 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
944833 TATTTCCGTG
*
944843 TAACAAATTCATA
1 TAACCAATTCATA
944856 TAACCAATTCATA
1 TAACCAATTCATA
* * *
944869 CAATCATTTCATA
1 TAACCAATTCATA
944882 TAAC
1 TAAC
944886 TTTTTCAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (13 bp):
TAACCAATTCATA
Found at i:944904 original size:13 final size:13
Alignment explanation
Indices: 944850--944916 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
944840 GTGTAACAAA
*
944850 TTCATATAACCAA
1 TTCATATAACCAT
* *
944863 TTCATACAATCAT
1 TTCATATAACCAT
**
944876 TTCATATAACTTT
1 TTCATATAACCAT
*
944889 TTCAAATAACCAT
1 TTCATATAACCAT
* *
944902 TTCATCTAAACAT
1 TTCATATAACCAT
944915 TT
1 TT
944917 AACACATATT
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:945320 original size:18 final size:17
Alignment explanation
Indices: 945280--945321 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
945270 AGTTGTAAAG
*
945280 TTTTATTTTTATTTATT
1 TTTTATTTTTATTTAAT
945297 TATTTATTTTTAGTTTAAT
1 T-TTTATTTTTA-TTTAAT
945316 TTTTAT
1 TTTTAT
945322 GTAAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTTAAT
Found at i:951425 original size:40 final size:40
Alignment explanation
Indices: 951377--951515 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
951367 TGACAATTAA
* *
951377 TCTGCATTATTGGTGGCTTGTCCACATTACCAGCAATTTG
1 TCTGCATTACTGGTGGCTTGTCCACATTACTAGCAATTTG
* * * * *
951417 TCTGCATTACTGGTAGCTTGTCCGCACTACTGGCAATTTA
1 TCTGCATTACTGGTGGCTTGTCCACATTACTAGCAATTTG
* **
951457 TCTGCATTACTGGTGGCTTGACCACATTACTAGCAGCTTG
1 TCTGCATTACTGGTGGCTTGTCCACATTACTAGCAATTTG
951497 TCTGCATTACTGGTGGCTT
1 TCTGCATTACTGGTGGCTT
951516 TTTCACAAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (40 bp):
TCTGCATTACTGGTGGCTTGTCCACATTACTAGCAATTTG
Found at i:951437 original size:20 final size:20
Alignment explanation
Indices: 951414--951515 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 20
951404 TACCAGCAAT
951414 TTGTCTGCATTACTGGTAGC
1 TTGTCTGCATTACTGGTAGC
* * * **
951434 TTGTCCGCACTACTGGCAAT
1 TTGTCTGCATTACTGGTAGC
* *
951454 TTATCTGCATTACTGGTGGC
1 TTGTCTGCATTACTGGTAGC
* ** * *
951474 TTGACCACATTACTAGCAGC
1 TTGTCTGCATTACTGGTAGC
*
951494 TTGTCTGCATTACTGGTGGC
1 TTGTCTGCATTACTGGTAGC
951514 TT
1 TT
951516 TTTCACAAAT
Statistics
Matches: 57, Mismatches: 25, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGTCTGCATTACTGGTAGC
Found at i:955274 original size:43 final size:43
Alignment explanation
Indices: 955208--955297 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
955198 TAACACACCA
* **
955208 ATAA-TGTGGTCAAGCTAGTAGATAATACAGATATAATTCCAG
1 ATAATTGTGGTCAAGCCACCAGATAATACAGATATAATTCCAG
* *
955250 ATAATTGTGGTCAAGCCACCAGATAATGCTGATATAATTCCAG
1 ATAATTGTGGTCAAGCCACCAGATAATACAGATATAATTCCAG
955293 ATAAT
1 ATAAT
955298 GTATTCCTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (43 bp):
ATAATTGTGGTCAAGCCACCAGATAATACAGATATAATTCCAG
Found at i:955447 original size:35 final size:36
Alignment explanation
Indices: 955407--955494 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 36
955397 GGCATCCTTT
* * * *
955407 ACATGCGATTCAGAATCAGT-ATAGTGGCATGCTTA
1 ACATGCGAATCAGAATAAGTAATAATGGCATGATTA
*
955442 GCATGCGAATCAGAATAAGTAATAATGGCATGATTA
1 ACATGCGAATCAGAATAAGTAATAATGGCATGATTA
*
955478 ACACGCGAATCAGAATA
1 ACATGCGAATCAGAATA
955495 TCAACAGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 17 0.38
36 28 0.62
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (36 bp):
ACATGCGAATCAGAATAAGTAATAATGGCATGATTA
Found at i:960798 original size:21 final size:20
Alignment explanation
Indices: 960769--960810 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
960759 GTGTCTTGAT
960769 GGTGTGGTGCGA-TAGGCAAG
1 GGTGTGGTGCGAGTA-GCAAG
960789 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
960810 G
1 G
960811 CACGGCGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.19, C:0.10, G:0.50, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:961365 original size:16 final size:15
Alignment explanation
Indices: 961340--961373 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
961330 AAAGTTGATA
*
961340 ATAATTAATATATATT
1 ATAATAAATATA-ATT
961356 ATAATAAATATAATT
1 ATAATAAATATAATT
961371 ATA
1 ATA
961374 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:966750 original size:41 final size:41
Alignment explanation
Indices: 966703--966855 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 41
966693 CGGCATAAAA
*
966703 CCTGCTAGGCTCA-AGCCTGATAAAAACTCCTCGACAGTAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTCCTCGACA-TAGG
* * *
966744 CCTGCTAGGCTTATAGCTTAATAAAAACTCAC-CGGCACTAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTC-CTCGACA-TAGG
** * *
966786 CCTGCTAGGCTTATAGCCTGATATATCAC-ACTGGCACA-AGG
1 CCTGCTAGGCTTATAGCCTGATA-AAAACTCCTCG-ACATAGG
966827 CCTGCTAGGCTTATAGCCTGATAAAAACT
1 CCTGCTAGGCTTATAGCCTGATAAAAACT
966856 AATACATAGT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
40 3 0.03
41 39 0.42
42 44 0.48
43 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (41 bp):
CCTGCTAGGCTTATAGCCTGATAAAAACTCCTCGACATAGG
Found at i:966786 original size:42 final size:42
Alignment explanation
Indices: 966703--966855 Score: 186
Period size: 41 Copynumber: 3.7 Consensus size: 42
966693 CGGCATAAAA
* * *
966703 CCTGCTAGGCTCA-AGCCTGATAAAAACTC-CTCGACAGTAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTCAC-CGGCACTAGG
* *
966744 CCTGCTAGGCTTATAGCTTAATAAAAACTCACCGGCACTAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
* * * * *
966786 CCTGCTAGGCTTATAGCCTGAT-ATATCACACTGGCACAAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
966827 CCTGCTAGGCTTATAGCCTGATAAAAACT
1 CCTGCTAGGCTTATAGCCTGATAAAAACT
966856 AATACATAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
41 48 0.51
42 45 0.48
43 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (42 bp):
CCTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
Found at i:970456 original size:385 final size:385
Alignment explanation
Indices: 969746--970521 Score: 1527
Period size: 385 Copynumber: 2.0 Consensus size: 385
969736 ACAAGCTCGT
969746 AATCTTTTAGCAACTCTAACCACTGTCGCTTTCTCAGATTCAGATCCTTCTAAGTCATCAAATAT
1 AATCTTTTAGCAACTCTAACCACTGTCGCTTTCTCAGATTCAGATCCTTCTAAGTCATCAAATAT
* *
969811 TTCAAACTTTTATGATCAGAATAAACATGACATTTTTCACCAAACAAATAGTGGTACCATATTTT
66 TTCAAACTTTTATGATCAGAATAAACATGACATTTTTCACCAAACAAATAGTGGCACCACATTTT
969876 CAAAGCAAACACAATAGCGGCCAATTCGAGATCATGCGTCGGATAGTTCTTTTCATGTGGCTTTA
131 CAAAGCAAACACAATAGCGGCCAATTCGAGATCATGCGTCGGATAGTTCTTTTCATGTGGCTTTA
969941 ACTGTCTCGAGGCATAAGCTATAACTTTGCCTTCCTCCATCAAAACACAACCCAAACCACTCAAA
196 ACTGTCTCGAGGCATAAGCTATAACTTTGCCTTCCTCCATCAAAACACAACCCAAACCACTCAAA
970006 GATGCATCACTATAAATAACAAATTATTTACTCGATTCTAGCTGAACTAACACTAGAGCCTTGGT
261 GATGCATCACTATAAATAACAAATTATTTACTCGATTCTAGCTGAACTAACACTAGAGCCTTGGT
970071 CAAAAGAGCTTTCAACTGATCGAAACTTTTCTGGCACTTTTCTGACCACTCAAACTTAAC
326 CAAAAGAGCTTTCAACTGATCGAAACTTTTCTGGCACTTTTCTGACCACTCAAACTTAAC
970131 AATCTTTTAGCAACTCTAACCACTGTCGCTTTCTCAGATTCAGATCCTTCTAAGTCATCAAATAT
1 AATCTTTTAGCAACTCTAACCACTGTCGCTTTCTCAGATTCAGATCCTTCTAAGTCATCAAATAT
970196 TTCAAACTTTTATGATCAGAATAAACATGACATTTTTCACCAAACAAATAGTGGCACCACATTTT
66 TTCAAACTTTTATGATCAGAATAAACATGACATTTTTCACCAAACAAATAGTGGCACCACATTTT
970261 CAAAGCAAACACAATAGCGGCCAATTCGAGATCATGCGTCGGATAGTTCTTTTCATGTGGCTTTA
131 CAAAGCAAACACAATAGCGGCCAATTCGAGATCATGCGTCGGATAGTTCTTTTCATGTGGCTTTA
970326 ACTGTCTCGAGGCATAAGCTATAACTTTGCCTTCCTCCATCAAAACACAACCCAAACCACTCAAA
196 ACTGTCTCGAGGCATAAGCTATAACTTTGCCTTCCTCCATCAAAACACAACCCAAACCACTCAAA
970391 GATGCATCACTATAAATAACAAATTATTTACTCGATTCTAGCTGAACTAACACTAGAGCCTTGGT
261 GATGCATCACTATAAATAACAAATTATTTACTCGATTCTAGCTGAACTAACACTAGAGCCTTGGT
970456 CAAAAGAGCTTTCAACTGATCGAAACTTTTCTGGCACTTTTCTGACCACTCAAACTTAAC
326 CAAAAGAGCTTTCAACTGATCGAAACTTTTCTGGCACTTTTCTGACCACTCAAACTTAAC
970516 -ATCTTT
1 AATCTTT
970522 CTGTAATAGC
Statistics
Matches: 389, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
384 6 0.02
385 383 0.98
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (385 bp):
AATCTTTTAGCAACTCTAACCACTGTCGCTTTCTCAGATTCAGATCCTTCTAAGTCATCAAATAT
TTCAAACTTTTATGATCAGAATAAACATGACATTTTTCACCAAACAAATAGTGGCACCACATTTT
CAAAGCAAACACAATAGCGGCCAATTCGAGATCATGCGTCGGATAGTTCTTTTCATGTGGCTTTA
ACTGTCTCGAGGCATAAGCTATAACTTTGCCTTCCTCCATCAAAACACAACCCAAACCACTCAAA
GATGCATCACTATAAATAACAAATTATTTACTCGATTCTAGCTGAACTAACACTAGAGCCTTGGT
CAAAAGAGCTTTCAACTGATCGAAACTTTTCTGGCACTTTTCTGACCACTCAAACTTAAC
Found at i:972663 original size:16 final size:16
Alignment explanation
Indices: 972642--972673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
972632 ACGAAATGAT
*
972642 TAAAATATAAGTAAAA
1 TAAAATAAAAGTAAAA
972658 TAAAATAAAAGTAAAA
1 TAAAATAAAAGTAAAA
972674 GTTCCAATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
TAAAATAAAAGTAAAA
Found at i:978703 original size:100 final size:98
Alignment explanation
Indices: 978599--979067 Score: 553
Period size: 100 Copynumber: 4.7 Consensus size: 98
978589 CACCAATGTG
* * * * * * * * * **
978599 GCTTTAATCTGTTCCACTGCACTATCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCC
* * *
978664 ACTGTAATGTCGGGAAGGTAAGATCCGCTGTTGCA
66 ACTG-AATGTCGGGAA-ATAAGATTCGCTGTTGTA
* *
978699 GCTTTAATCTATTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCC
* *
978764 ACTGCATCGCCAGGGAAATAAGATTCGCTGTTGTA
66 ACTGAAT-GTC-GGGAAATAAGATTCGCTGTTGTA
* *
978799 GCTTTGATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCC
* *
978864 ACTGCACTGCTAGGGAAATAAGATTCGCTGTTGTA
66 ACTG-AATG-TCGGGAAATAAGATTCGCTGTTGTA
* *
978899 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACTGATGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCC
** * * *
978964 ACTGCACCGCCTGGGAAGTAAGATTCACTGTTGTA
66 ACTG-AATGTC-GGGAAATAAGATTCGCTGTTGTA
* * * *
978999 GCTTTAAT-ATTTCTAACTGCAATGTTGGGGAAGCAAGATTCACTGTTGTGGCGTTAATCTGTTC
1 GCTTTAATCTTTTC-AACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTC
979063 CACTG
65 CACTG
979068 CACCGCCGGG
Statistics
Matches: 325, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
99 5 0.02
100 314 0.97
101 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (98 bp):
GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCC
ACTGAATGTCGGGAAATAAGATTCGCTGTTGTA
Found at i:978837 original size:150 final size:148
Alignment explanation
Indices: 978575--979084 Score: 531
Period size: 150 Copynumber: 3.4 Consensus size: 148
978565 CTGTAATTTT
* ** *
978575 GGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCA-CTATCAGGGAAGTAAGATT
1 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATC-GCCAGGGAAATAAGATT
* * * *
978639 CACTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGAAGGTAAGATCCGCTGTTGCAGCTTT
65 CACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAA-GTAAGATTCACTGTTGTAGCTTT
978704 AATCTATTCAACTGCAATGTC
129 AATCT-TTCAACTGCAATGTC
978725 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAATAAGATTC
1 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAATAAGATTC
* * * * *
978790 GCTGTTGTAGCTTTGATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTA
66 ACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGTAAGATTCACTGTTGTAGCTTTA
* *
978855 ATCTGTTCCACTGCACTG-C
130 ATCT-TTCAACTGCAATGTC
* ** * * * * * ** * * *
978874 TAGGGAAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCGGGGAAACAAGAT
1 -GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCAGGGAAATAAGAT
* * * ** ** *
978938 TCACTGATGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCACTGTTGTAGCTT
64 TCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGTAAGATTCACTGTTGTAGCTT
* *
979003 TAATATTTCTAACTGCAATGTT
128 TAATCTTTC-AACTGCAATGTC
* * * * *
979025 GGGGAAGCAAGATTCACTGTTGTGGCGTTAATCTGTTCCACTGCACCGCCGGGGAAATAA
1 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAATAA
979085 TATCTATAAT
Statistics
Matches: 294, Mismatches: 59, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
149 5 0.02
150 281 0.96
151 8 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (148 bp):
GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAATAAGATTC
ACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAGTAAGATTCACTGTTGTAGCTTTAA
TCTTTCAACTGCAATGTC
Found at i:978904 original size:200 final size:200
Alignment explanation
Indices: 978626--979084 Score: 650
Period size: 200 Copynumber: 2.3 Consensus size: 200
978616 TGCACTATCA
* * * ** * * * *
978626 GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGTAATG-TCGGGAAGGTAAGATCC
1 GGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAA-ATAAGATCC
*
978690 GCTGTTGCAGCTTTAATCTATTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTA
65 GCTGTTGCAGCTTTAATCTATTCAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGGCTTTA
* * * * *
978755 ATCTGTTCCACTGCATCGCCAGGGAAATAAGATTCGCTGTTGTAGCTTTGATCTTTTTAACTGCA
130 ATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTGTAGCTTTAATATTTCTAACTGCA
978820 ATGTCG
195 ATGTCG
* *
978826 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAATAAGATTCG
1 GGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAATAAGATCCG
* * * *
978891 CTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACTGATGTGGCTTTAA
66 CTGTTGCAGCTTTAATCTATTCAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGGCTTTAA
* *
978956 TCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCACTGTTGTAGCTTTAATATTTCTAACTGCAA
131 TCTGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTGTAGCTTTAATATTTCTAACTGCAA
*
979021 TGTTG
196 TGTCG
* * **
979026 GGGAAGCAAGATTCACTGTTGTGGCGTTAATCTGTTCCACTGCACCGCCGGGGAAATAA
1 GGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAATAA
979085 TATCTATAAT
Statistics
Matches: 229, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
200 223 0.97
201 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (200 bp):
GGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCACTGCTAGGGAAATAAGATCCG
CTGTTGCAGCTTTAATCTATTCAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGGCTTTAA
TCTGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTGTAGCTTTAATATTTCTAACTGCAA
TGTCG
Found at i:979068 original size:100 final size:100
Alignment explanation
Indices: 978682--979084 Score: 621
Period size: 100 Copynumber: 4.0 Consensus size: 100
978672 GTCGGGAAGG
* * *
978682 TAAGATCCGCTGTTGCAGCTTTAATCTATTC-AACTGCAATGTCGGGGAAGCAAGATTCACCGAT
1 TAAGATTCGCTGTTGTAGCTTTAATCT-TTCTAACTGCAATGTCGGGGAAGCAAGATTCACTGAT
* *
978746 GTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAA
65 GTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAA
* *
978782 TAAGATTCGCTGTTGTAGCTTTGATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTCTAACTGCAATGTCGGGGAAGCAAGATTCACTGATG
*
978847 TGGCTTTAATCTGTTCCACTGCACTG-CTAGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCT-GGGAAA
* *
978882 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACTGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTCTAACTGCAATGTCGGGGAAGCAAGATTCACTGATG
*
978947 TGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAG
66 TGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAA
* * * *
978982 TAAGATTCACTGTTGTAGCTTTAATATTTCTAACTGCAATGTTGGGGAAGCAAGATTCACTGTTG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTCTAACTGCAATGTCGGGGAAGCAAGATTCACTGATG
* *
979047 TGGCGTTAATCTGTTCCACTGCACCGCCGGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAA
979082 TAA
1 TAA
979085 TATCTATAAT
Statistics
Matches: 279, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
99 3 0.01
100 274 0.98
101 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
TAAGATTCGCTGTTGTAGCTTTAATCTTTCTAACTGCAATGTCGGGGAAGCAAGATTCACTGATG
TGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAA
Found at i:979080 original size:50 final size:50
Alignment explanation
Indices: 978575--979069 Score: 449
Period size: 50 Copynumber: 9.9 Consensus size: 50
978565 CTGTAATTTT
*** * * * *
978575 GGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACTATC
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* * * * *
978625 AGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGTAATGTC
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* * * * *
978675 -GGGAAGGTAAGATCCGCTGTTGCAGCTTTAATCTATTCAACTGCAATGTC
1 GGGGAA-GCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* * * * *
978725 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCC
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAAT-GTC
* ** * * * *
978775 AGGGAAATAAGATTCGCTGTTGTAGCTTTGATCTTTTTAACTGCAATGTC
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* * * *
978825 GGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCACTG-C
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* ** * * *
978874 TAGGGAAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC
1 -GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* * * * ** *
978925 GGGGAAACAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCACCGCC
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
* * * *
978975 TGGGAAGTAAGATTCACTGTTGTAGCTTTAATAT-TTCTAACTGCAATGTT
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTC-AACTGCAATGTC
* * *
979025 GGGGAAGCAAGATTCACTGTTGTGGCGTTAATCTGTTCCACTGCA
1 GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCA
979070 CCGCCGGGGA
Statistics
Matches: 348, Mismatches: 89, Indels: 16
0.77 0.20 0.04
Matches are distributed among these distances:
49 11 0.03
50 326 0.94
51 11 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (50 bp):
GGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGTTCAACTGCAATGTC
Found at i:979614 original size:123 final size:125
Alignment explanation
Indices: 979460--979723 Score: 406
Period size: 123 Copynumber: 2.1 Consensus size: 125
979450 CTCCGCTACT
*
979460 GGAGACGAGATCTATAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTA
1 GGAGACAAGATCTATAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTA
*
979525 AATCTGCTTCCTT-AC-AAGATAAGATTCGCCGTCTTCGATCAACTCCGCTACTACTTAG
66 AATCTGCTTCCTTAACTAAGATAAGATTCGCCGTCTTCGATCAACTCCACTACTACTTAG
* * *
979583 GGAGACAAGATCTATAATTTCCAACTTACTCCACTGCTGACTAGGGAGATAGGACTTGTGGCTTA
1 GGAGACAAGATCTATAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTA
* ** *
979648 AATCTGCTTTCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
66 AATCTGCTTCCTTA-AC-T-AAGATAAGATTCGCCGTCTTCGATCAACTCCACTACTACTTAG
979711 GGAGACAAGATCT
1 GGAGACAAGATCT
979724 GCTATATTCA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
123 73 0.57
125 2 0.02
128 52 0.41
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (125 bp):
GGAGACAAGATCTATAATTTCCAACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTA
AATCTGCTTCCTTAACTAAGATAAGATTCGCCGTCTTCGATCAACTCCACTACTACTTAG
Found at i:981824 original size:6 final size:6
Alignment explanation
Indices: 981813--981865 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
981803 TGACCTCTCC
* **
981813 TTTTCT TTTTCTT TTTTCT TTTAT-T TTTTAT TTTGAT TTTTCT TTTTCT
1 TTTTCT TTTTC-T TTTTCT TTT-TCT TTTTCT TTTTCT TTTTCT TTTTCT
981862 TTTT
1 TTTT
981866 TTATTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 1 0.02
6 33 0.80
7 7 0.17
ACGTcount: A:0.06, C:0.09, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:981831 original size:13 final size:13
Alignment explanation
Indices: 981813--981880 Score: 68
Period size: 12 Copynumber: 5.3 Consensus size: 13
981803 TGACCTCTCC
*
981813 TTTTCTTTTTCTT
1 TTTTCTTTTTATT
981826 TTTTC-TTTTATT
1 TTTTCTTTTTATT
* *
981838 TTTTATTTTGA-T
1 TTTTCTTTTTATT
*
981850 TTTTCTTTTTCTTT
1 TTTTCTTTTT-ATT
*
981864 TTTTATTTTTATT
1 TTTTCTTTTTATT
981877 TTTT
1 TTTT
981881 GGACTTGAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 19 0.43
13 15 0.34
14 10 0.23
ACGTcount: A:0.07, C:0.07, G:0.01, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTATT
Found at i:990342 original size:31 final size:30
Alignment explanation
Indices: 990307--990364 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
990297 AGTTTTAGAC
*
990307 TCTAAAGTTTCATAGTTTATATGTTTCACAA
1 TCTAAAGTTTCATAGTTTA-AAGTTTCACAA
990338 TCTAAAGTTTCATAGTTTAAAGTTTCA
1 TCTAAAGTTTCATAGTTTAAAGTTTCA
990365 TTATATTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (30 bp):
TCTAAAGTTTCATAGTTTAAAGTTTCACAA
Found at i:990365 original size:15 final size:15
Alignment explanation
Indices: 990309--990365 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
990299 TTTTAGACTC
990309 TAAAGTTTCATAGTT
1 TAAAGTTTCATAGTT
* * * *
990324 TATATGTTTCACAATC
1 TA-AAGTTTCATAGTT
990340 TAAAGTTTCATAGTT
1 TAAAGTTTCATAGTT
990355 TAAAGTTTCAT
1 TAAAGTTTCAT
990366 TATATTAGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
15 22 0.67
16 11 0.33
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (15 bp):
TAAAGTTTCATAGTT
Found at i:991531 original size:28 final size:28
Alignment explanation
Indices: 991500--991568 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
991490 TAATGTAGTC
* *
991500 AAGCTGCAAGATACAGAATATTGTGGTA
1 AAGCTACAAGATACAGAATATTATGGTA
* *
991528 AAGCTACTAGATACAGAATATTATGGTC
1 AAGCTACAAGATACAGAATATTATGGTA
* *
991556 AAGCCACCAGATA
1 AAGCTACAAGATA
991569 ATGCAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (28 bp):
AAGCTACAAGATACAGAATATTATGGTA
Found at i:994023 original size:25 final size:25
Alignment explanation
Indices: 993989--994041 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
993979 TATGCACCGA
993989 TAATGATATTAGCTAATAACTTAAC
1 TAATGATATTAGCTAATAACTTAAC
*
994014 TAATGATATTAGGTAATAACTTAAC
1 TAATGATATTAGCTAATAACTTAAC
994039 TAA
1 TAA
994042 GTTAGTCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (25 bp):
TAATGATATTAGCTAATAACTTAAC
Found at i:1000813 original size:24 final size:22
Alignment explanation
Indices: 1000763--1000826 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
1000753 TGACTCATAT
* *
1000763 TAAAATATATATTTAATATATA
1 TAAAATATATATTTAATAAAAA
*
1000785 TAAAATATATATTTGATTAAAAA
1 TAAAATATATATTT-AATAAAAA
*
1000808 TAAAAAAATATATTTAATA
1 T-AAAATATATATTTAATA
1000827 TATAATTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 14 0.40
23 9 0.26
24 12 0.34
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAAATATATATTTAATAAAAA
Found at i:1002876 original size:16 final size:14
Alignment explanation
Indices: 1002855--1002888 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
1002845 TTATATTTTT
1002855 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
1002871 TTATAAATTTTATA
1 TTATAAATTTTATA
1002885 TTAT
1 TTAT
1002889 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:1005640 original size:20 final size:20
Alignment explanation
Indices: 1005589--1005640 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1005579 ATAGAAGCAT
*
1005589 CGAAGTGTAGACAGAGGCAC
1 CGAAGTGTAAACAGAGGCAC
*
1005609 CGAAGTGCAAACAGAGGCAC
1 CGAAGTGTAAACAGAGGCAC
*
1005629 CGAAGTATAAAC
1 CGAAGTGTAAAC
1005641 CCGTACAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.29, T:0.10
Consensus pattern (20 bp):
CGAAGTGTAAACAGAGGCAC
Found at i:1008941 original size:18 final size:18
Alignment explanation
Indices: 1008920--1008955 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1008910 AAAGAAAGAA
1008920 TAGATAAGAATGTTGGTG
1 TAGATAAGAATGTTGGTG
1008938 TAGATAAGAATGTTGGTG
1 TAGATAAGAATGTTGGTG
1008956 CAAAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (18 bp):
TAGATAAGAATGTTGGTG
Found at i:1014634 original size:7 final size:7
Alignment explanation
Indices: 1014620--1014653 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1014610 GTTGAAACAA
1014620 TCCAAAG
1 TCCAAAG
*
1014627 TGCAAAG
1 TCCAAAG
1014634 TCCAAAG
1 TCCAAAG
1014641 TCCAAAG
1 TCCAAAG
1014648 TCCAAA
1 TCCAAA
1014654 ACAATCCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (7 bp):
TCCAAAG
Found at i:1031747 original size:28 final size:28
Alignment explanation
Indices: 1031701--1031780 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
1031691 AACAATACAG
* *
1031701 TGTGGGCCTTAGACTAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
*
1031729 TGTGGGCTTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
*
1031757 TGTGGGCCTTAGCCCAAAACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
1031781 TCAGTACCGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:1058564 original size:41 final size:41
Alignment explanation
Indices: 1058514--1058662 Score: 156
Period size: 41 Copynumber: 3.6 Consensus size: 41
1058504 TACCACATTA
* * *
1058514 GCATAAAGCCTTCTAGGCACAAAGCCAGATATGATACACCG
1 GCATGAAGCCTGCTAGGCACAAAGCCTGATATGATACACCG
* * * * *
1058555 GCACGAAGCCTGCTAGGCATAGAGCCTGATATGGTACACTG
1 GCATGAAGCCTGCTAGGCACAAAGCCTGATATGATACACCG
* * * *
1058596 GCATGAAGCCTG-TGAGGCATAAAGCCTGTTATAATTCACCG
1 GCATGAAGCCTGCT-AGGCACAAAGCCTGATATGATACACCG
* *
1058637 GCATAAATCCTGCTAGGCACAAAGCC
1 GCATGAAGCCTGCTAGGCACAAAGCC
1058663 CGAATATCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 86 0.98
42 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (41 bp):
GCATGAAGCCTGCTAGGCACAAAGCCTGATATGATACACCG
Found at i:1066217 original size:14 final size:16
Alignment explanation
Indices: 1066198--1066230 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1066188 AACTTTATAT
1066198 AAATATA-TATAAA-A
1 AAATATAGTATAAAGA
1066212 AAATATAGTATAAAGA
1 AAATATAGTATAAAGA
1066228 AAA
1 AAA
1066231 GGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATATAGTATAAAGA
Found at i:1072774 original size:10 final size:10
Alignment explanation
Indices: 1072761--1072822 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
1072751 AAAAAATATT
1072761 TCAAAAAAAA
1 TCAAAAAAAA
1072771 TCAAAATCAAAA
1 TCAAAA--AAAA
1072783 T-AAAAAAAGA
1 TCAAAAAAA-A
*
1072793 TTTCAAAAATAA
1 --TCAAAAAAAA
1072805 TCAAAAAAAA
1 TCAAAAAAAA
*
1072815 TGAAAAAA
1 TCAAAAAA
1072823 TTAAAATGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 3 0.07
10 23 0.53
11 4 0.09
12 7 0.16
13 6 0.14
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:1072796 original size:34 final size:32
Alignment explanation
Indices: 1072751--1072822 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 32
1072741 AGATCCGATC
*
1072751 AAAAAATATTTCAAAAAAAATCAAAATCAAAATA
1 AAAAAAGATTTCAAAAAAAATCAAAA--AAAATA
* *
1072785 AAAAAAGATTTCAAAAATAATCAAAAAAAATG
1 AAAAAAGATTTCAAAAAAAATCAAAAAAAATA
1072817 AAAAAA
1 AAAAAA
1072823 TTAAAATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 11 0.31
34 24 0.69
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.18
Consensus pattern (32 bp):
AAAAAAGATTTCAAAAAAAATCAAAAAAAATA
Found at i:1072854 original size:17 final size:17
Alignment explanation
Indices: 1072834--1072867 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1072824 TAAAATGATG
*
1072834 GAAAAAGATAAGAAAAA
1 GAAAAAGAAAAGAAAAA
*
1072851 GAAAAGGAAAAGAAAAA
1 GAAAAAGAAAAGAAAAA
1072868 TGAGAGGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
GAAAAAGAAAAGAAAAA
Found at i:1074197 original size:44 final size:44
Alignment explanation
Indices: 1074071--1074189 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
1074061 GAAGATGGCG
*
1074071 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAAT
* * * **
1074115 AATCCTATCCCCCTAAAGTTACAGTGGAGCAGATTGAAGTTACA-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-AT
*
1074159 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCA
1074190 AACTGAAGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 63 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAAT
Found at i:1074505 original size:132 final size:132
Alignment explanation
Indices: 1074326--1074911 Score: 915
Period size: 132 Copynumber: 4.4 Consensus size: 132
1074316 TTCTGAGTTT
* * *
1074326 GCAGTGAAGTACGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC
*
1074391 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGGTTTAAGCCACCAGTCCTATCTCCCTGAG
66 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
1074456 CA
131 CA
* ** * *
1074458 GCAGTGGAGTAGGTTGAAGATTTTAGATTCTGTCTCCCTAAATAGTAGTGGAGCAGATCAAAGAT
1 GCAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC
* *
1074523 GGTGAATCTTATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAC
66 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
1074588 CA
131 CA
* * *
1074590 GCAGTGTAATAGGTTGAAGATTGTAGA-TCATGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
1 GCAGTGGAGTAGGTTGAAGATTGTAGATTC-TGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGA
1074654 CGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGA
65 CGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGA
1074719 GCA
130 GCA
* * * * *
1074722 GCAGTGTAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTAAAGCAGATCAAAGAT
1 GCAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC
* * *
1074787 GGTGACTCTTGTCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACCAGTCCTATCTCCCTGAG
66 GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
1074852 CA
131 CA
* * *
1074854 GCAATGGAGTAGGTTGAAGATTGTAGA-TCATGTCTCCCTAAGCAGTACTGGAGCAGAT
1 GCAGTGGAGTAGGTTGAAGATTGTAGATTC-TGTCTCCCTAAGCAGTAGTAGAGCAGAT
1074912 TGAAGACAAC
Statistics
Matches: 418, Mismatches: 33, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
131 3 0.01
132 414 0.99
133 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC
GGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
CA
Found at i:1075047 original size:20 final size:21
Alignment explanation
Indices: 1075006--1075048 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1074996 AGTAGAATAC
* *
1075006 ATTAAAGCTGAAGTGGAGCGA
1 ATTAAAGCTAAAGTGCAGCGA
1075027 ATTAAAGCTAAAG-GCAGCGA
1 ATTAAAGCTAAAGTGCAGCGA
1075047 AT
1 AT
1075049 CCTATCTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (21 bp):
ATTAAAGCTAAAGTGCAGCGA
Found at i:1075283 original size:44 final size:44
Alignment explanation
Indices: 1075196--1075316 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
1075186 GAACCAACTT
* * * * * *
1075196 TATCTCCCTGAAGTTGTAGTTGAGCAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTGAAGTCGAGCAGATTAAAACGATAAATCC
*
1075240 TATCTCCCTGAAGTTGAAGTCGAGCGGATTAAAACGATAAATCC
1 TATCTCCCTGAAGTTGAAGTCGAGCAGATTAAAACGATAAATCC
* * *
1075284 TATAC-CTCTGAAGTTGCAGTAG-GTCAGATTAAA
1 TAT-CTCCCTGAAGTTGAAGTCGAG-CAGATTAAA
1075317 TCTACCATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 62 0.97
45 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGAAGTCGAGCAGATTAAAACGATAAATCC
Found at i:1076213 original size:12 final size:12
Alignment explanation
Indices: 1076196--1076230 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1076186 TAAAAGAAAC
1076196 TATATATAAATA
1 TATATATAAATA
*
1076208 TATATAAAAATA
1 TATATATAAATA
1076220 TATAGTATAAA
1 TATA-TATAAA
1076231 AAAGGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
TATATATAAATA
Found at i:1081833 original size:41 final size:40
Alignment explanation
Indices: 1081768--1081956 Score: 146
Period size: 41 Copynumber: 4.6 Consensus size: 40
1081758 TACCACATTT
* * *
1081768 GCATAAAGCCTG-TGAGGTATAAAGCTTATTAAAATACACCG
1 GCATAAAGCCTGCT-AGGCACAAAGCTTA-TATAATACACCG
* ** *
1081809 GCATAAAGCCTTCTAGGCACAAAGCCAGATATGATACACCG
1 GCATAAAGCCTGCTAGGCACAAAG-CTTATATAATACACCG
** * * **
1081850 GCACGAAGCCTGCTAGGCATAAAGCCTGATATGGTACACCG
1 GCATAAAGCCTGCTAGGCACAAAG-CTTATATAATACACCG
* * * * *
1081891 GCATGAAGCCTGCTAGACATAAAGCCTACTATAATTCACCG
1 GCATAAAGCCTGCTAGGCACAAAGCTTA-TATAATACACCG
* *
1081932 GCATAAAGACTTCTAGGCACAAAGC
1 GCATAAAGCCTGCTAGGCACAAAGC
1081957 CCGAATATCA
Statistics
Matches: 120, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.02
41 115 0.96
42 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (40 bp):
GCATAAAGCCTGCTAGGCACAAAGCTTATATAATACACCG
Found at i:1081931 original size:82 final size:82
Alignment explanation
Indices: 1081802--1081957 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 82
1081792 CTTATTAAAA
* * * * *
1081802 TACACCGGCATAAAGCCTTCTAGGCACAAAGCCAGATATGATACACCGGCACGAAGCCTGCTAGG
1 TACACCGGCATAAAGCCTGCTAGACACAAAGCCAGATATAATACACCGGCACAAAGACTGCTAGG
*
1081867 CATAAAGCCTGATATGG
66 CACAAAGCCTGATATGG
* * * * * *
1081884 TACACCGGCATGAAGCCTGCTAGACATAAAGCCTA-CTATAATTCACCGGCATAAAGACTTCTAG
1 TACACCGGCATAAAGCCTGCTAGACACAAAGCC-AGATATAATACACCGGCACAAAGACTGCTAG
1081948 GCACAAAGCC
65 GCACAAAGCC
1081958 CGAATATCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
82 60 0.98
83 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.18
Consensus pattern (82 bp):
TACACCGGCATAAAGCCTGCTAGACACAAAGCCAGATATAATACACCGGCACAAAGACTGCTAGG
CACAAAGCCTGATATGG
Found at i:1081957 original size:41 final size:40
Alignment explanation
Indices: 1081801--1081957 Score: 170
Period size: 41 Copynumber: 3.9 Consensus size: 40
1081791 GCTTATTAAA
* *
1081801 ATACACCGGCATAAAGCCTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCC-TATATG
** *
1081842 ATACACCGGCACGAAGCCTGCTAGGCATAAAGCCTGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCT-ATATG
* * * * *
1081883 GTACACCGGCATGAAGCCTGCTAGACATAAAGCCTACTATA
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCTA-TATG
* * *
1081924 ATTCACCGGCATAAAGACTTCTAGGCACAAAGCC
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCC
1081958 CGAATATCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 97 0.99
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (40 bp):
ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCTATATG
Found at i:1082775 original size:86 final size:87
Alignment explanation
Indices: 1082629--1082801 Score: 339
Period size: 86 Copynumber: 2.0 Consensus size: 87
1082619 AAAGTTTATT
1082629 TTACATATATAACCTTAATAAAATAAAATAAAAACTATATAATATATGGCTAATACCGTCCAACC
1 TTACATATATAACCTTAATAAAATAAAATAAAAACTATATAATATATGGCTAATACCGTCCAACC
1082694 AACGTGCAAATGCGTTGTTTGC
66 AACGTGCAAATGCGTTGTTTGC
1082716 TTACATATAT-ACCTTAATAAAATAAAATAAAAACTATATAATATATGGCTAATACCGTCCAACC
1 TTACATATATAACCTTAATAAAATAAAATAAAAACTATATAATATATGGCTAATACCGTCCAACC
1082780 AACGTGCAAATGCGTTGTTTGC
66 AACGTGCAAATGCGTTGTTTGC
1082802 AACTTAAAGG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 76 0.88
87 10 0.12
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (87 bp):
TTACATATATAACCTTAATAAAATAAAATAAAAACTATATAATATATGGCTAATACCGTCCAACC
AACGTGCAAATGCGTTGTTTGC
Found at i:1085565 original size:18 final size:18
Alignment explanation
Indices: 1085537--1085578 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1085527 TGGTTTTTAT
1085537 CCATGTGGGGCC-CACGAGC
1 CCAT-TGGGGCCACACGA-C
1085556 CCATTGGGGCCACACGAC
1 CCATTGGGGCCACACGAC
1085574 CCATT
1 CCATT
1085579 TCAGGCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (18 bp):
CCATTGGGGCCACACGAC
Found at i:1091778 original size:17 final size:17
Alignment explanation
Indices: 1091758--1091790 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1091748 CGAAAGCTCG
*
1091758 TTCGGGTTGGAAGCTTA
1 TTCGAGTTGGAAGCTTA
1091775 TTCGAGTTGGAAGCTT
1 TTCGAGTTGGAAGCTT
1091791 GTCAGAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.36
Consensus pattern (17 bp):
TTCGAGTTGGAAGCTTA
Found at i:1093107 original size:68 final size:68
Alignment explanation
Indices: 1093010--1093149 Score: 226
Period size: 68 Copynumber: 2.1 Consensus size: 68
1093000 TACGGCTTGT
* *
1093010 TGATTCTTGGACTGAACGTAGCGTGTGTGAGTCTAGATATACATGCCATTAGATAACCTGTGATA
1 TGATTCTTGAACTGAACATAGCGTGTGTGAGTCTAGATATACATGCCATTAGATAACCTGTGATA
1093075 GTA
66 GTA
* * *
1093078 TGATTCTTGAACTGAACATAGCTTGTGTGAGTCTAGATATTCATGCCATTAGATAACCTGTGCTA
1 TGATTCTTGAACTGAACATAGCGTGTGTGAGTCTAGATATACATGCCATTAGATAACCTGTGATA
*
1093143 GTG
66 GTA
1093146 TGAT
1 TGAT
1093150 AACTCCTGAC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (68 bp):
TGATTCTTGAACTGAACATAGCGTGTGTGAGTCTAGATATACATGCCATTAGATAACCTGTGATA
GTA
Found at i:1099648 original size:28 final size:28
Alignment explanation
Indices: 1099608--1099666 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
1099598 TAACAGAACA
* * *
1099608 AAACAATGTGGGCTTTAGCCCAATATAG
1 AAACAAGGTGGGCCTTAGCCCAATACAG
1099636 AAACAAGGTGGGCCTTAGCCCAATACAG
1 AAACAAGGTGGGCCTTAGCCCAATACAG
1099664 AAA
1 AAA
1099667 TAGTATGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (28 bp):
AAACAAGGTGGGCCTTAGCCCAATACAG
Found at i:1100100 original size:27 final size:27
Alignment explanation
Indices: 1100070--1100121 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1100060 ACGGTCATTT
1100070 TACCCTATAAGGG-TATTTCGATAATCC
1 TACCCTA-AAGGGATATTTCGATAATCC
* *
1100097 TACCCTACAGGGATATTTCGGTAAT
1 TACCCTAAAGGGATATTTCGATAAT
1100122 TTCACAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (27 bp):
TACCCTAAAGGGATATTTCGATAATCC
Found at i:1100135 original size:27 final size:27
Alignment explanation
Indices: 1100105--1100264 Score: 99
Period size: 27 Copynumber: 5.9 Consensus size: 27
1100095 CCTACCCTAC
**
1100105 AGGGATATTTCGGTAATTTCACAAACT
1 AGGGATATTTCAATAATTTCACAAACT
* *
1100132 AGGGGTATTTCAATAATTTCACAAATT
1 AGGGATATTTCAATAATTTCACAAACT
* * * * *
1100159 AAGGGA-GTTTCAGTAATTTTATAAATT
1 -AGGGATATTTCAATAATTTCACAAACT
* * * *
1100186 GGGGGTATTTCAATAATTTTACACACT
1 AGGGATATTTCAATAATTTCACAAACT
* * * * ***
1100213 GGGGGTATTTTAGTAATTTTGTAAACT
1 AGGGATATTTCAATAATTTCACAAACT
*
1100240 A-GGAGTATTTCGATAATTTCACAAA
1 AGGGA-TATTTCAATAATTTCACAAA
1100265 TCGAGGGTCT
Statistics
Matches: 101, Mismatches: 29, Indels: 6
0.74 0.21 0.04
Matches are distributed among these distances:
26 5 0.05
27 92 0.91
28 4 0.04
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGATATTTCAATAATTTCACAAACT
Found at i:1100175 original size:54 final size:54
Alignment explanation
Indices: 1100105--1100265 Score: 171
Period size: 54 Copynumber: 3.0 Consensus size: 54
1100095 CCTACCCTAC
* * *
1100105 AGGGATATTTCGGTAATTTCACAAACTAGGGGTATTTCAATAATTTCACAAATTA
1 AGGG-TATTTCAGTAATTTTATAAACTAGGGGTATTTCAATAATTTCACAAATTA
* * * * * *
1100160 AGGG-AGTTTCAGTAATTTTATAAATTGGGGGTATTTCAATAATTTTACACACTG
1 AGGGTA-TTTCAGTAATTTTATAAACTAGGGGTATTTCAATAATTTCACAAATTA
* * * * *
1100214 GGGGTATTTTAGTAATTTTGTAAACTAGGAGTATTTCGATAATTTCACAAAT
1 AGGGTATTTCAGTAATTTTATAAACTAGGGGTATTTCAATAATTTCACAAAT
1100266 CGAGGGTCTC
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
53 1 0.01
54 79 0.93
55 5 0.06
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTATAAACTAGGGGTATTTCAATAATTTCACAAATTA
Found at i:1102736 original size:17 final size:17
Alignment explanation
Indices: 1102714--1102752 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1102704 AGTGAATCGA
* *
1102714 AAGCTCGTTCGGGTTGG
1 AAGCTCATTCAGGTTGG
1102731 AAGCTCATTCAGGTTGG
1 AAGCTCATTCAGGTTGG
1102748 AAGCT
1 AAGCT
1102753 TGTTGGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (17 bp):
AAGCTCATTCAGGTTGG
Found at i:1112701 original size:14 final size:14
Alignment explanation
Indices: 1112682--1112722 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
1112672 TTGGGAAGAA
1112682 TGTTTTCTAAACAAG
1 TGTTTTCTAAA-AAG
1112697 T-TTTTC-AAAAAG
1 TGTTTTCTAAAAAG
1112709 TGTTTTCTAGAAAA
1 TGTTTTCTA-AAAA
1112723 TTCTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 6 0.26
15 5 0.22
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (14 bp):
TGTTTTCTAAAAAG
Found at i:1112714 original size:13 final size:15
Alignment explanation
Indices: 1112682--1112717 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
1112672 TTGGGAAGAA
1112682 TGTTTTCTAAACAAG
1 TGTTTTCTAAACAAG
1112697 T-TTTTC-AAA-AAG
1 TGTTTTCTAAACAAG
1112709 TGTTTTCTA
1 TGTTTTCTA
1112718 GAAAATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.21
13 8 0.42
14 6 0.32
15 1 0.05
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (15 bp):
TGTTTTCTAAACAAG
Found at i:1123064 original size:16 final size:17
Alignment explanation
Indices: 1123037--1123084 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
1123027 GTCCAAAATT
*
1123037 ATATGTATTAATTTATA
1 ATATATATTAATTTATA
1123054 ATATA-ATTAATTT-TA
1 ATATATATTAATTTATA
*
1123069 ATTTATATCTAATTTA
1 ATATATAT-TAATTTA
1123085 ATTTGTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATATATTAATTTATA
Found at i:1123070 original size:22 final size:22
Alignment explanation
Indices: 1123044--1123088 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1123034 ATTATATGTA
1123044 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATATAATTTAATT
*
1123066 TTAATTTATATCTAATTTAATT
1 TTAATTTATATATAATTTAATT
1123088 T
1 T
1123089 GTGTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATTTAATT
Found at i:1131227 original size:41 final size:41
Alignment explanation
Indices: 1131182--1131324 Score: 268
Period size: 41 Copynumber: 3.5 Consensus size: 41
1131172 GATCCAGTAC
1131182 ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTT
1 ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTT
1131223 ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTT
1 ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTT
*
1131264 ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTC
1 ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTT
*
1131305 ACCGACATTAAGCCTGCTAG
1 ACCGGCATTAAGCCTGCTAG
1131325 GCACAAGCCT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTTT
Found at i:1133867 original size:24 final size:23
Alignment explanation
Indices: 1133840--1133884 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1133830 AATCACAAGT
*
1133840 AAAATTGCTTGAAATAACCATTGA
1 AAAATTGCTTCAAA-AACCATTGA
*
1133864 AAAATTTCTTCAAAAACCATT
1 AAAATTGCTTCAAAAACCATT
1133885 TCTCCTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (23 bp):
AAAATTGCTTCAAAAACCATTGA
Found at i:1141998 original size:40 final size:39
Alignment explanation
Indices: 1141920--1142002 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 39
1141910 TGTGGGCTCA
1141920 ATGGGCTCATAGGCCCCACACGGATGAAATCCTCGATTT
1 ATGGGCTCATAGGCCCCACACGGATGAAATCCTCGATTT
*
1141959 CATGGGCTCATAGGCCCCACACTGATGAAATCCAT-GATTT
1 -ATGGGCTCATAGGCCCCACACGGATGAAATCC-TCGATTT
1141999 ATGG
1 ATGG
1142003 CAAATACTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 4 0.10
40 36 0.88
41 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
ATGGGCTCATAGGCCCCACACGGATGAAATCCTCGATTT
Found at i:1143104 original size:53 final size:53
Alignment explanation
Indices: 1142172--1143093 Score: 1772
Period size: 53 Copynumber: 17.4 Consensus size: 53
1142162 CCCCAAAATA
1142172 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142225 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142278 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142331 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142384 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142437 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142490 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142543 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142596 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142649 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142702 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142755 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142808 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142861 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142914 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1142967 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
* * * * * *
1143020 GGTAAAATAACCGAAATACCCTTATAGGGTAAGTGACCGAAATACCCCCATAA
1 GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
* *
1143073 GGTAAAATGATCGAAATACCC
1 GGTAAAATAACCGAAATACCC
1143094 CCATAGGGTA
Statistics
Matches: 861, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 861 1.00
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (53 bp):
GGTAAAATAACCGAAATACCCTTATAAGATAAATGACCAAAATACCCTCATAG
Found at i:1143118 original size:27 final size:27
Alignment explanation
Indices: 1142202--1143121 Score: 389
Period size: 27 Copynumber: 34.7 Consensus size: 27
1142192 CTTATAAGAT
** *
1142202 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142229 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142255 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142282 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142308 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142335 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142361 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142388 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142414 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142441 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142467 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142494 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142520 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142547 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142573 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142600 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142626 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142653 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142679 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142706 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142732 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142759 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142785 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142812 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142838 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142865 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142891 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142918 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142944 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * ** * *
1142971 AAATAACCGAAATACCCTTATAAGAT-
1 AAATGACTGAAATACCCCCATAGGGTA
** *
1142997 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * **
1143024 AAATAACCGAAATACCCTTATAGGGT-
1 AAATGACTGAAATACCCCCATAGGGTA
* * *
1143050 AAGTGACCGAAATACCCCCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
1143077 AAATGA-TCGAAATACCCCCATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
**
1143104 AAATGACTGTTATACCCC
1 AAATGACTGAAATACCCC
1143122 TAGGAGATGA
Statistics
Matches: 712, Mismatches: 163, Indels: 36
0.78 0.18 0.04
Matches are distributed among these distances:
26 336 0.47
27 375 0.53
28 1 0.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.21
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:1143707 original size:34 final size:34
Alignment explanation
Indices: 1143607--1143708 Score: 91
Period size: 34 Copynumber: 3.0 Consensus size: 34
1143597 NNNNNNNNGA
*
1143607 AGGCCCTACTGATTACTGGCATTGTGATGGGCTC
1 AGGCCCTACTGATTACTGGCATTGTGATGGGCTT
* * * ** * * *
1143641 AAG-CCTAATCATTTACTGTTA-CGGGAAAGGGCTT
1 AGGCCCTACTGA-TTACTGGCATTGTG-ATGGGCTT
1143675 AGGCCCTACTGATTACTGGCATTGTGATGGGCTT
1 AGGCCCTACTGATTACTGGCATTGTGATGGGCTT
1143709 CTAACTGCAT
Statistics
Matches: 47, Mismatches: 17, Indels: 8
0.65 0.24 0.11
Matches are distributed among these distances:
33 8 0.17
34 31 0.66
35 8 0.17
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (34 bp):
AGGCCCTACTGATTACTGGCATTGTGATGGGCTT
Found at i:1143847 original size:34 final size:34
Alignment explanation
Indices: 1143791--1143855 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
1143781 ACTGCATGAC
** *
1143791 TGATATCTATTACTGTTATGGGCCAAGGCCCCAG
1 TGATATCTATTACTGAAATGGGCAAAGGCCCCAG
1143825 TGATA-CTATTACTGAAATTGGGCAAAGGCCC
1 TGATATCTATTACTGAAA-TGGGCAAAGGCCC
1143856 TACTAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (34 bp):
TGATATCTATTACTGAAATGGGCAAAGGCCCCAG
Found at i:1146780 original size:23 final size:23
Alignment explanation
Indices: 1146734--1146780 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1146724 CCAATTCGTA
* *
1146734 CTAAATCTAAATCATTTCCGAAC
1 CTAAACCTAAATCATTTCCAAAC
*
1146757 CTAAACCTAAATCATTTTCAAAC
1 CTAAACCTAAATCATTTCCAAAC
1146780 C
1 C
1146781 CAATTCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (23 bp):
CTAAACCTAAATCATTTCCAAAC
Found at i:1146789 original size:23 final size:23
Alignment explanation
Indices: 1146736--1146790 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
1146726 AATTCGTACT
* *
1146736 AAATCTAAATCATTTCCGAACCT
1 AAATCTAAATCATTTCCAAACCC
* *
1146759 AAACCTAAATCATTTTCAAACCC
1 AAATCTAAATCATTTCCAAACCC
*
1146782 AATTCTAAA
1 AAATCTAAA
1146791 CAATTCTGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATCTAAATCATTTCCAAACCC
Found at i:1157497 original size:14 final size:15
Alignment explanation
Indices: 1157478--1157510 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1157468 GTGAAAAATT
*
1157478 CATGC-TTCAATCAC
1 CATGCTTTCAATCAA
1157492 CATGCTTTCAATCAA
1 CATGCTTTCAATCAA
1157507 CATG
1 CATG
1157511 ATATCACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (15 bp):
CATGCTTTCAATCAA
Found at i:1162361 original size:41 final size:40
Alignment explanation
Indices: 1162262--1162419 Score: 131
Period size: 43 Copynumber: 3.8 Consensus size: 40
1162252 AGCTCGTACA
* * * *
1162262 ATGCC-ATATCCCAGATATGGTCTTACATGTTAACGCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG--AA-TCATATCG
* * * * *
1162304 GTGCCACTGTCTCAGACAGGGTCTTATACGAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCATAT-CG
**
1162345 ATGCCAATGTCCCAGACATGGTCTTACACGTTTTC-TCACTTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAT-A--TCG
1162388 ATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAA
1162420 ATCAGACCTC
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
40 5 0.05
41 30 0.33
42 7 0.08
43 49 0.53
44 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCATATCG
Found at i:1162411 original size:84 final size:83
Alignment explanation
Indices: 1162262--1162419 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 83
1162252 AGCTCGTACA
* * * * *
1162262 ATGCCATATCCCAGATATGGTCTTACATGTTAACGCATATCGGTGCCACTGTCTCAGACAGGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTTAACGCATATCGATGCCAATGTCCCAGACAGGGTC
*
1162327 TTATACGAATCATATACG
66 TTACACGAATCATATACG
* ** * *
1162345 ATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACT-TCGATGCCAATGTCCCAGACATGG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTTAACGCA-TATCGATGCCAATGTCCCAGACAGGG
1162409 TCTTACACGAA
64 TCTTACACGAA
1162420 ATCAGACCTC
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 5 0.08
84 56 0.90
85 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (83 bp):
ATGCCATATCCCAGACATGGTCTTACACGTTAACGCATATCGATGCCAATGTCCCAGACAGGGTC
TTACACGAATCATATACG
Found at i:1162583 original size:34 final size:34
Alignment explanation
Indices: 1162540--1162629 Score: 146
Period size: 34 Copynumber: 2.6 Consensus size: 34
1162530 ATCCAATACT
1162540 CAAATCAATTCGACAATATATATGTATACATATA
1 CAAATCAATTCGACAATATATATGTATACATATA
1162574 CAAATCAATTC-AGCAATATATATGTATACATATA
1 CAAATCAATTCGA-CAATATATATGTATACATATA
* *
1162608 CAAATCAATTCGGCCATATATA
1 CAAATCAATTCGACAATATATA
1162630 AAACATATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
33 1 0.02
34 51 0.98
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.31
Consensus pattern (34 bp):
CAAATCAATTCGACAATATATATGTATACATATA
Found at i:1170339 original size:19 final size:19
Alignment explanation
Indices: 1170315--1170361 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
1170305 ATAACAATTA
1170315 CATTTGATTCATTCTAAAT
1 CATTTGATTCATTCTAAAT
1170334 CATTTGATTCATTCTAAAT
1 CATTTGATTCATTCTAAAT
*
1170353 CCTTTGATT
1 CATTTGATT
1170362 AAAAATCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (19 bp):
CATTTGATTCATTCTAAAT
Found at i:1170752 original size:15 final size:15
Alignment explanation
Indices: 1170732--1170761 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1170722 CTTATTTTAC
1170732 AATTAAATCTAATTT
1 AATTAAATCTAATTT
*
1170747 AATTAAATTTAATTT
1 AATTAAATCTAATTT
1170762 TAACTCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTAAATCTAATTT
Found at i:1175734 original size:9 final size:9
Alignment explanation
Indices: 1175720--1175749 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1175710 AATCGGCAGC
1175720 AAAAAAAGA
1 AAAAAAAGA
1175729 AAAAAAAGA
1 AAAAAAAGA
*
1175738 AGAAAAAGA
1 AAAAAAAGA
1175747 AAA
1 AAA
1175750 TTACATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1182251 original size:7 final size:7
Alignment explanation
Indices: 1182239--1182275 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
1182229 CAAAAAAATG
1182239 TGAAAAA
1 TGAAAAA
1182246 TGAAAAA
1 TGAAAAA
1182253 GTG-AAAA
1 -TGAAAAA
1182260 TGAAAAA
1 TGAAAAA
1182267 T-AAAAA
1 TGAAAAA
1182273 TGA
1 TGA
1182276 TGAAAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 8 0.30
7 17 0.63
8 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:1182261 original size:14 final size:14
Alignment explanation
Indices: 1182232--1182275 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1182222 TTTGAGTCAA
1182232 AAAAATGTGAAAAATG
1 AAAAA-GTG-AAAATG
1182248 AAAAAGTGAAAATG
1 AAAAAGTGAAAATG
*
1182262 AAAAA-TAAAAATG
1 AAAAAGTGAAAATG
1182275 A
1 A
1182276 TGAAAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 3 0.11
16 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
AAAAAGTGAAAATG
Found at i:1182287 original size:17 final size:16
Alignment explanation
Indices: 1182232--1182291 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 16
1182222 TTTGAGTCAA
1182232 AAAAATG-TGAAAAAT
1 AAAAATGATGAAAAAT
1182247 GAAAAAGTGAAAATGAAAAAT
1 -AAAAA-TG---ATGAAAAAT
1182268 AAAAATGATGAAAAAGT
1 AAAAATGATGAAAAA-T
1182285 AAAAATG
1 AAAAATG
1182292 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 13 0.34
17 10 0.26
19 2 0.05
20 5 0.13
21 8 0.21
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAAATGATGAAAAAT
Found at i:1186358 original size:128 final size:129
Alignment explanation
Indices: 1185914--1186538 Score: 1020
Period size: 129 Copynumber: 4.9 Consensus size: 129
1185904 TTACACTAGC
* * ** *
1185914 TCCCTAGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTTCCTAAGCAATAGCGGAGC
1 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
*
1185979 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTGTA
66 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATA
1186043 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
1 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
* * * *
1186108 AGATCGAAGACGGCAAATCTTATCTTCAAATGTAAAGAAGTAGATTTAAGCCACCAGTCCTATA
66 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATA
* *
1186172 TACCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGTAGTAGCGGAGC
1 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
* * * *
1186237 AAATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCAC-GGTCCTATA
66 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATA
1186300 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
1 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
*
1186365 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATG
66 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATA
* *
1186429 TCCCTGGTCAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGC
1 TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
* * * * *
1186493 ACATCGAAGATGGTGAATCTTATCTTCAAGGGTAAGGAAGCAGATT
66 AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATT
1186539 GAAGTCGATA
Statistics
Matches: 462, Mismatches: 33, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
128 200 0.43
129 262 0.57
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (129 bp):
TCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGC
AGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATA
Found at i:1186407 original size:257 final size:257
Alignment explanation
Indices: 1185920--1186538 Score: 1051
Period size: 257 Copynumber: 2.4 Consensus size: 257
1185910 TAGCTCCCTA
* * * *
1185920 GTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTTCCTAAGCAATAGCGGAGCAGATCG
1 GTCAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGCAAATCG
* * *
1185985 AAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTGTATCCCTGG
65 AAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGG
1186050 TCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGCAGATCGA
130 TCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGCAGATCGA
*
1186115 AGACGGCAAATCTTATCTTCAAATGTAAAGAAGTAGATTTAAGCCACCAGTCCTATATACCTG
195 AGACGGCAAATCTTATCTTCAAATGTAAAGAAGTAGATTTAAGCCACAAGTCCTATATACCTG
*
1186178 GTCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGTAGTAGCGGAGCAAATCG
1 GTCAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGCAAATCG
*
1186243 AAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCAC-GGTCCTATATCCCTGG
65 AAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGG
1186307 TCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGCAGATCGA
130 TCAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGCAGATCGA
* * * * *
1186372 AGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATGTCCCTG
195 AGACGGCAAATCTTATCTTCAAATGTAAAGAAGTAGATTTAAGCCACAAGTCCTATATACCTG
*
1186435 GTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGCACATCGA
1 GTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGCAAATCGA
* *
1186500 AGATGGTGAATCTTATCTTCAAGGGTAAGGAAGCAGATT
66 AGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATT
1186539 GAAGTCGATA
Statistics
Matches: 341, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
256 81 0.24
257 155 0.45
258 105 0.31
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (257 bp):
GTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGTAGTAGCGGAGCAAATCGA
AGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
CAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCCCCCTAAGCAGTAGCGGAGCAGATCGAA
GACGGCAAATCTTATCTTCAAATGTAAAGAAGTAGATTTAAGCCACAAGTCCTATATACCTG
Found at i:1186903 original size:44 final size:43
Alignment explanation
Indices: 1186553--1186969 Score: 186
Period size: 44 Copynumber: 9.6 Consensus size: 43
1186543 TCGATAATCC
* * ** *
1186553 TATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAACAGATCT
* * ** * * ** *
1186597 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CGCATTAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAACAGATCT
* ** * *
1186638 TATCTCCCTGAGGTTGCACCGGAGCAGACTGAGTAAACAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT-AACAGATCT
* * * ** *
1186682 TATCCCCCTTAAGTTGCAGTGG-GACAGATCGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAG-CAGA-CTAAG-TAACAGATCT
* * * * * *
1186727 TATCTCCCTGAGGTTGGAGTGGAGCAGATTGAAGCTGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAACAGATCT
* * ** * *
1186771 TATCTCCTTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAACAGATCT
* * ** * * * * *
1186815 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CGCATCGGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAACAGATCT
* *
1186856 TATCTCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAA-CAGATCT
* * *
1186900 TATC-CCCTTGAAGTTGCAGTGG-GACAGATCGAA-AACCACAAATCT
1 TATCTCCC-TGAAGTTGCAGTGGAG-CAGA-CTAAGTA--ACAGATCT
1186945 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
1186970 GAATTAAGAC
Statistics
Matches: 279, Mismatches: 75, Indels: 37
0.71 0.19 0.09
Matches are distributed among these distances:
41 57 0.20
42 2 0.01
43 14 0.05
44 135 0.48
45 64 0.23
46 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAACAGATCT
Found at i:1186909 original size:129 final size:126
Alignment explanation
Indices: 1186723--1187421 Score: 450
Period size: 129 Copynumber: 5.5 Consensus size: 126
1186713 AAGATGGCAA
* * *
1186723 ATCTTATCTCCCTGAGGTTGGAGTGGAGCAGAT-TGAAGCTGATAATCCTATCTCCTTGAAGTTG
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATAAGAAGC----AATCCTATCCCCTTGAAGTTG
* *
1186787 TAGTGGAGTGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCGG
62 TAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAG
* * * *
1186852 GTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGCAGATCTTATCCCCTTGAAGTTGC
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TAAG-AAGCA-ATCCTATCCCCTTGAAGTTGT
* * *** * * * * * * *
1186917 AGTGG-GACAGATCGAAAACCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAGACG
63 AGTGGAG-CGGAT-TAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CG-C-
*
1186981 AT-GG
122 ATCAG
* * * * * * * * * * * *
1186985 ATCTCA-CTCTCTGAAGTCGCAGTAGATG-AGATCA-CATCAGA-CTTAT--CTTTAAAGTTGAA
1 ATCTTATCTCCCTGAGGTTGCAGTGGA-GCAGATAAGAAGCA-ATCCTATCCCCTTGAAGTTGTA
*** * * * * * * *
1187044 ACAGAAC-AAGTTGAAGCT-ACA-ATC---TC-CT-TGAAGTTGCAGTAGAGTGGATCACATTAA
64 GTGGAGCGGA-TTAAAG-TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAG
* * *
1187101 ATCTTATCTCCCTAAGGTTGCAGTGGAGCAAAT-TGAAGCTGATAATCCTATCTCCC-TGAAGTT
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATAAGAAGC----AATCCTATC-CCCTTGAAGTT
* *
1187164 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTGGATCGCATTA
61 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCA
*
1187229 A
126 G
*
1187230 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGAT-TGAAGCCGATAATCCTATCTCCC-TGAAGTT
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATAAGAAG-C---AATCCTATC-CCCTTGAAGTT
* * * *
1187293 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAATTTGCAATAAAGTGGATCACATCA
61 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCA
1187358 G
126 G
* * * *
1187359 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAGACAAGTCTTATCCCCCTGAAGTT
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TAAGAAG-CAA-TCCTATCCCCTTGAAGTT
1187422 ACAGTAGGGG
Statistics
Matches: 445, Mismatches: 86, Indels: 78
0.73 0.14 0.13
Matches are distributed among these distances:
115 2 0.00
116 7 0.02
117 20 0.04
118 1 0.00
119 17 0.04
120 2 0.00
121 7 0.02
122 1 0.00
123 18 0.04
124 8 0.02
125 6 0.01
126 13 0.03
127 2 0.00
128 14 0.03
129 249 0.56
130 36 0.08
131 9 0.02
132 23 0.05
133 8 0.02
134 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (126 bp):
ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATAAGAAGCAATCCTATCCCCTTGAAGTTGTAGT
GGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAG
Found at i:1186916 original size:218 final size:218
Alignment explanation
Indices: 1186531--1186969 Score: 711
Period size: 218 Copynumber: 2.0 Consensus size: 218
1186521 AGGGTAAGGA
*
1186531 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGGTTAAAGTAATAGATC
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
*
1186596 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCACCGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCACCGGA
* * * ***
1186661 GCAGACTGAGTAAACAGGTCTTATCCCCCTTAAGTTGCAGTGGGACAGATCGAAGATGGCAAATC
131 GCAGACTAAGTAAACAGATCTTATCCCCCTTAAGTTGCAGTGGGACAGATCGAAAACCACAAATC
* *
1186726 TTATCTCCCTGAGGTTGGAGTGG
196 TTATCTCCCTGAAGTTGCAGTGG
* *
1186749 AGCAGATTGAAG-CTGATAATCCTATCTCCTTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGAT
1 AGCAGATTGAAGTC-GATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGAT
* *
1186813 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCGGGTCTTATCTCCCTGAGGTTGCAGCGG
65 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCACCGG
*
1186878 AGCAGACTAAGTAAGCAGATCTTAT-CCCCTTGAAGTTGCAGTGGGACAGATCGAAAACCACAAA
130 AGCAGACTAAGTAAACAGATCTTATCCCCCTT-AAGTTGCAGTGGGACAGATCGAAAACCACAAA
1186942 TCTTATCTCCCTGAAGTTGCAGTGG
194 TCTTATCTCCCTGAAGTTGCAGTGG
1186967 AGC
1 AGC
1186970 GAATTAAGAC
Statistics
Matches: 204, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
217 7 0.03
218 197 0.97
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (218 bp):
AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCACCGGA
GCAGACTAAGTAAACAGATCTTATCCCCCTTAAGTTGCAGTGGGACAGATCGAAAACCACAAATC
TTATCTCCCTGAAGTTGCAGTGG
Done.