Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 26 of 85
Found at i:8630828 original size:55 final size:56
Alignment explanation
Indices: 8630719--8630831 Score: 192
Period size: 55 Copynumber: 2.0 Consensus size: 56
8630709 TTAACCCTTC
*
8630719 TTACTTTTACAAACAAATAGAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
1 TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
* *
8630775 TTACTTTTACAAGCCAATAAAACATTT-AAAAAAAATGGTACATGATAGTAAACCT
1 TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
8630830 TT
1 TT
8630832 TTTTTTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 30 0.56
56 24 0.44
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (56 bp):
TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
Found at i:8638771 original size:18 final size:17
Alignment explanation
Indices: 8638743--8638777 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8638733 NNNNTTAAGA
*
8638743 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8638760 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8638778 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8639024 original size:45 final size:44
Alignment explanation
Indices: 8638924--8639033 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
8638914 TTTTCCATTA
8638924 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
8638963 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
8639008 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
8639034 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:8639033 original size:16 final size:16
Alignment explanation
Indices: 8639012--8639065 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
8639002 TTGATTTGCT
8639012 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
8639028 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
8639044 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
8639060 AATACA
1 ATTACA
8639066 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:8641287 original size:43 final size:44
Alignment explanation
Indices: 8641205--8641351 Score: 126
Period size: 43 Copynumber: 3.4 Consensus size: 44
8641195 TTTGCATCGC
* * * **
8641205 AGTGCATCAT-TGGATATACCAAAAGAAAGATAC-AGGCACACAT
1 AGTGCATCATCTGGATAAATCAAAACAATTATACTA-GCACACAT
*
8641248 AGTGCATCATCTGGA-AAATCAAAGCAATTATACTAGCACACGA-
1 AGTGCATCATCTGGATAAATCAAAACAATTATACTAGCACAC-AT
* * * *
8641291 GGTGCATCAT-TGGATGAATCAAAACAATTATATTGGCACACAT
1 AGTGCATCATCTGGATAAATCAAAACAATTATACTAGCACACAT
* *
8641334 AATGCAACATC-GGATAAA
1 AGTGCATCATCTGGATAAA
8641352 CTGAGGCAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 5 0.06
43 72 0.87
44 6 0.07
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (44 bp):
AGTGCATCATCTGGATAAATCAAAACAATTATACTAGCACACAT
Found at i:8644433 original size:13 final size:13
Alignment explanation
Indices: 8644415--8644441 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8644405 ACTGGAAAAT
8644415 AGATTAATTAGTA
1 AGATTAATTAGTA
8644428 AGATTAATTAGTA
1 AGATTAATTAGTA
8644441 A
1 A
8644442 ATCCTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AGATTAATTAGTA
Found at i:8646217 original size:49 final size:49
Alignment explanation
Indices: 8646151--8646248 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
8646141 TGCATATAGA
* * * *
8646151 ACTATACTTCTTTTATTTGACATTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
8646200 ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
1 ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
8646249 TAAAAAGATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (49 bp):
ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
Found at i:8652911 original size:51 final size:51
Alignment explanation
Indices: 8652804--8653023 Score: 262
Period size: 51 Copynumber: 4.2 Consensus size: 51
8652794 ACTTCTGATC
* * * *
8652804 AGTGACAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGATCGGTGAAA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
* * *
8652854 AATGACAAGTAATAAGTGGTAGCTTTAGCTATACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
*
8652905 AGTGACAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT-A--A-T--C-AGTGACA
* * * *
8652963 AGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTCTCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
8653014 AGTGACAAGT
1 AGTGACAAGT
8653024 AGGGGTGAGT
Statistics
Matches: 145, Mismatches: 17, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
50 20 0.14
51 75 0.52
52 1 0.01
54 2 0.01
55 2 0.01
57 1 0.01
58 44 0.30
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
Found at i:8652970 original size:58 final size:58
Alignment explanation
Indices: 8652898--8653022 Score: 214
Period size: 58 Copynumber: 2.2 Consensus size: 58
8652888 TTATCTAATC
* *
8652898 AGTGACAAGTGACAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
8652956 AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTCTCTGATTAGTGACA
1 AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
8653014 AGTGACAAG
1 AGTGACAAG
8653023 TAGGGGTGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (58 bp):
AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:8653198 original size:9 final size:9
Alignment explanation
Indices: 8653174--8653210 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8653164 TGAGTTTTCG
*
8653174 AATTCGAAA
1 AATTCGAAT
*
8653183 AACTCGAAT
1 AATTCGAAT
8653192 AATTCGAAT
1 AATTCGAAT
8653201 AATTCGAAT
1 AATTCGAAT
8653210 A
1 A
8653211 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8653905 original size:5 final size:5
Alignment explanation
Indices: 8653895--8653920 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8653885 GAACAAATAT
8653895 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
8653921 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:8654020 original size:5 final size:5
Alignment explanation
Indices: 8654010--8654035 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8654000 CTCGAAAATT
8654010 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
8654036 CAAATGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:8654063 original size:7 final size:7
Alignment explanation
Indices: 8654051--8654076 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8654041 GCTTACCCCT
8654051 AGTGACA
1 AGTGACA
8654058 AGTGACA
1 AGTGACA
8654065 AGTGACA
1 AGTGACA
8654072 AGTGA
1 AGTGA
8654077 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:8654859 original size:29 final size:29
Alignment explanation
Indices: 8654802--8654860 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8654792 TCGTGGAAGA
* *
8654802 GGTGGAGAACGTGTTCGTTGAGAGCTCGT
1 GGTGAAGAACGTGTTCGTTGAGAACTCGT
* *
8654831 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACGTGTTCGTTGAGAACTCGT
8654860 G
1 G
8654861 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.31
Consensus pattern (29 bp):
GGTGAAGAACGTGTTCGTTGAGAACTCGT
Found at i:8655588 original size:42 final size:42
Alignment explanation
Indices: 8655529--8655610 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
8655519 ATATATTAAT
8655529 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
8655571 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
8655611 ACACCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (42 bp):
AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
Found at i:8662327 original size:25 final size:25
Alignment explanation
Indices: 8662281--8662328 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8662271 TTAGAGAATA
* * *
8662281 TTTCATACCATTCTTTCCTAATTCT
1 TTTCATACCATTCATGCATAATTCT
*
8662306 TTTCATGCCATTCATGCATAATT
1 TTTCATACCATTCATGCATAATT
8662329 TTGTTGTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTCATACCATTCATGCATAATTCT
Found at i:8662620 original size:29 final size:29
Alignment explanation
Indices: 8662587--8662685 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
8662577 TCAGTACTCG
8662587 CCACAAAGGCTTTCCTGTCCAGAATTTTT
1 CCACAAAGGCTTTCCTGTCCAGAATTTTT
* * * ** ** * **
8662616 CCACAAAGGCTGTCTTTTATATCTAGTACT
1 CCACAAAGGCTTTCCTGTCCA-GAATTTTT
8662646 CGCTACAAAGGCTTTCCTGTCCAGAATTTTT
1 C-C-ACAAAGGCTTTCCTGTCCAGAATTTTT
8662677 CCACAAAGG
1 CCACAAAGG
8662686 TTGTCTTTTA
Statistics
Matches: 47, Mismatches: 20, Indels: 6
0.64 0.27 0.08
Matches are distributed among these distances:
29 23 0.49
30 5 0.11
31 5 0.11
32 14 0.30
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTGTCCAGAATTTTT
Found at i:8662656 original size:61 final size:61
Alignment explanation
Indices: 8662579--8662756 Score: 275
Period size: 61 Copynumber: 2.9 Consensus size: 61
8662569 CTTTACATTC
*
8662579 AGTACTCGCCACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
1 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
*
8662640 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGTTGTCTTTTATATCT
1 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
* * * * * * *
8662701 AGTACTCGCTACAAAAGCTTTCCTATCCAGAGTTATGCCAAAAAGGCTGTCCTTTA
1 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTA
8662757 CATTCATTAC
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 107 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (61 bp):
AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
Found at i:8662768 original size:61 final size:61
Alignment explanation
Indices: 8662554--8662785 Score: 254
Period size: 61 Copynumber: 3.8 Consensus size: 61
8662544 AGAGATATTG
* * * *
8662554 CCACAAAGGCTTTTTCTTTACAT-TCAGTACTCGCCACAAAGGCTTTCCTGTCCAGAATTTTT
1 CCACAAAGGC-TGTCCTTTACATCT-AGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
* * *
8662616 CCACAAAGGCTGTCTTTTATATCTAGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTT
1 CCACAAAGGCTGTCCTTTACATCTAGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
* * * * * * *
8662677 CCACAAAGGTTGTCTTTTATATCTAGTACTCGCTACAAAAGCTTTCCTATCCAGAGTTATG
1 CCACAAAGGCTGTCCTTTACATCTAGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
* * *
8662738 CCAAAAAGGCTGTCCTTTACAT-TCATTACTCG-TCATAAAAGCTTTCCT
1 CCACAAAGGCTGTCCTTTACATCT-AGTACTCGCT-ACAAAAGCTTTCCT
8662786 TTTAAAGCCT
Statistics
Matches: 150, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
60 2 0.01
61 137 0.91
62 11 0.07
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (61 bp):
CCACAAAGGCTGTCCTTTACATCTAGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
Found at i:8667682 original size:13 final size:13
Alignment explanation
Indices: 8667662--8667697 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
8667652 CAAAGTCAAG
8667662 AAAAATTTTATTA
1 AAAAATTTTATTA
* *
8667675 AGAAATTTTGTTA
1 AAAAATTTTATTA
8667688 AAAAATTTTA
1 AAAAATTTTA
8667698 CCGTTTACGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
AAAAATTTTATTA
Found at i:8668351 original size:25 final size:25
Alignment explanation
Indices: 8668323--8668408 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
8668313 TGTTCCGCCC
*
8668323 CACATCTCGTAGGAGCTTACCGATT
1 CACAGCTCGTAGGAGCTTACCGATT
* *
8668348 CACAGCTCGTATGAGCTTACTGATT
1 CACAGCTCGTAGGAGCTTACCGATT
* * * *
8668373 TACAGCTTG-AGAGAGCATACCAATT
1 CACAGCTCGTAG-GAGCTTACCGATT
*
8668398 CATAGCTCGTA
1 CACAGCTCGTA
8668409 TAAGCATAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTAGGAGCTTACCGATT
Found at i:8671163 original size:54 final size:54
Alignment explanation
Indices: 8671105--8671223 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
8671095 GACACAAACG
** * * * *
8671105 CTTTTCTTTTAGATATGCCAAAAATGCTTTCTGTACAGAGGTTTGCCATAAAGA
1 CTTTTCTTTTAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
* * * *
8671159 CTTTTCTTTCAGATACACCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGG
1 CTTTTCTTTTAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
*
8671213 CTTTTCCTTTA
1 CTTTTCTTTTA
8671224 TAGAGGTTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (54 bp):
CTTTTCTTTTAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
Found at i:8671171 original size:28 final size:28
Alignment explanation
Indices: 8671067--8671474 Score: 156
Period size: 28 Copynumber: 14.7 Consensus size: 28
8671057 ACAAAGATTC
* * * *
8671067 GCCACAAAGGCTTTCCTTTTAGAGGCTC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * * *
8671095 GACACAAACGCTTTTCTTTTAGA--TAT
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * *
8671121 GCCAAAAATGC-TTTCTGTACAGAGGTTT
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
* * **
8671149 GCCATAAAGACTTTTCTTTCAGA--TAC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * **
8671175 ACCACAAAGGATTTT-TATAAAGAGGTTT
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
* *
8671203 GCCATAAAGGCTTTTCCTTTATAGAGGTTT
1 GCCACAAAGGCTTTT-CTTT-CAGAGGTTT
* * ** * *
8671233 TCCACAAAGGC-TGTCTAGACAGTGGTTC
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
** *
8671261 GCCACAAAATCTTTTCTTTAAGAGGTTT
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* ** *
8671289 GCCATAAAGGCTTTT-TGTAAAGAGGTTC
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
* * * *
8671317 ACCAAAAAGGCTTTCCTTTCAGAGGCTT
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
**
8671345 GCCACAAAGGCTTTTCTTTCAGA--TAC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * * * * * *
8671371 ACCAAAAAGGCTTAT-GTACAAAGGTTC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* *
8671398 GCTACAAAGGC-TTTCTTTTCAAAGGTTT
1 GCCACAAAGGCTTTTC-TTTCAGAGGTTT
* * * *
8671426 TCCACAAAGGTTTATTTTTTATAGAGGTTT
1 GCCACAAAGGCTT-TTCTTT-CAGAGGTTT
* *
8671456 GCAACAAAGGCTATTCTTT
1 GCCACAAAGGCTTTTCTTT
8671475 TAGAAATGCC
Statistics
Matches: 268, Mismatches: 91, Indels: 41
0.67 0.23 0.10
Matches are distributed among these distances:
25 10 0.04
26 42 0.16
27 11 0.04
28 147 0.55
29 22 0.08
30 36 0.13
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (28 bp):
GCCACAAAGGCTTTTCTTTCAGAGGTTT
Found at i:8671316 original size:56 final size:55
Alignment explanation
Indices: 8671176--8671359 Score: 172
Period size: 56 Copynumber: 3.3 Consensus size: 55
8671166 TTCAGATACA
* * * * *
8671176 CCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGGCTTTTCCTTTATAGAGGTTTT
1 CCACAAAGGCTTTTTGTAAAGAGGTTCGCCA-AAAAGCTTTT-CTTTA-AGAGGTTTG
* * * * *
8671234 CCACAAAGGCTGTCTAG-ACAGTGGTTCGCCACAAAATCTTTTCTTTAAGAGGTTTG
1 CCACAAAGGCT-TTTTGTAAAGAGGTTCGCCA-AAAAGCTTTTCTTTAAGAGGTTTG
* * * * *
8671290 CCATAAAGGCTTTTTGTAAAGAGGTTCACCAAAAAGGCTTTCCTTTCAGAGGCTTG
1 CCACAAAGGCTTTTTGTAAAGAGGTTCGCCAAAAA-GCTTTTCTTTAAGAGGTTTG
8671346 CCACAAAGGCTTTT
1 CCACAAAGGCTTTT
8671360 CTTTCAGATA
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
55 7 0.07
56 58 0.57
57 5 0.05
58 29 0.29
59 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (55 bp):
CCACAAAGGCTTTTTGTAAAGAGGTTCGCCAAAAAGCTTTTCTTTAAGAGGTTTG
Found at i:8671359 original size:84 final size:84
Alignment explanation
Indices: 8671064--8671467 Score: 247
Period size: 84 Copynumber: 4.8 Consensus size: 84
8671054 TGTACAAAGA
* * * * * *
8671064 TTCGCCACAAAGGCTTTCCTTTTAGAGGCTCGACACAAACGCTTTTCTTTTAGA--TATGCCAAA
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTAAGAGGTTTGCCAAA
* * *
8671127 AATGCTTTCTGTACAGAGG
66 AAGGCTTTTTGTAAAGAGG
* * * * ** * * * *
8671146 TTTGCCATAAAGACTTTTCTTTCAGATAC--ACCACAAAGGATTTT-TATAAAGAGGTTTGCCAT
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCT-TTAAGAGGTTTGCCAA
* *
8671208 AAAGGCTTTTCCTTTATAGAGG
65 AAAGGCTTTT--TGTAAAGAGG
** * ** * **
8671230 TTTTCCACAAAGGCTGT-CTAGACAGTGG-TTCGCCACAAAATCTTTTCTTTAAGAGGTTTGCCA
1 TTCGCCACAAAGGCTTTCCT-TTCAGAGGCTT-GCCACAAAGGCTTTTCTTTAAGAGGTTTGCCA
*
8671293 TAAAGGCTTTTTGTAAAGAGG
64 AAAAGGCTTTTTGTAAAGAGG
* * * ***
8671314 TTCACCAAAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTCAGA--TACACCAAA
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTAAGAGGTTTGCCAAA
*
8671377 AAGGC-TTATGTACAA-AGG
66 AAGGCTTTTTGTA-AAGAGG
* * * * * * *
8671395 TTCGCTACAAAGGCTTTCTTTTCAAAGGTTTTCCACAAAGGTTTATTTTTTATAGAGGTTTG-CA
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTT-TTCTTTA-AGAGGTTTGCCA
8671459 ACAAAGGCT
64 A-AAAGGCT
8671468 ATTCTTTTAG
Statistics
Matches: 240, Mismatches: 63, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
79 1 0.00
80 15 0.06
81 45 0.19
82 53 0.22
83 5 0.02
84 73 0.30
85 11 0.05
86 36 0.15
87 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (84 bp):
TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTAAGAGGTTTGCCAAA
AAGGCTTTTTGTAAAGAGG
Found at i:8671476 original size:30 final size:28
Alignment explanation
Indices: 8671390--8671476 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 28
8671380 GCTTATGTAC
* *
8671390 AAAGGTTCGCTACAAAGGCT-TTCTTTT
1 AAAGGTTTGCAACAAAGGCTATTCTTTT
* * *
8671417 CAAAGGTTTTCCACAAAGGTTTATT-TTTT
1 -AAAGGTTTGCAACAAAGG-CTATTCTTTT
8671446 ATAGAGGTTTGCAACAAAGGCTATTCTTTT
1 A-A-AGGTTTGCAACAAAGGCTATTCTTTT
8671476 A
1 A
8671477 GAAATGCCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 16 0.34
29 10 0.21
30 21 0.45
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (28 bp):
AAAGGTTTGCAACAAAGGCTATTCTTTT
Found at i:8680340 original size:42 final size:42
Alignment explanation
Indices: 8680285--8680368 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
8680275 ATTTTACGTC
* *
8680285 TAATAAACCTAAATTAAATAATAATTAG-ATTTAAATGTCAAT
1 TAATAAACATAAATTAAATAATAA-TAGTATTTAAATGCCAAT
* * *
8680327 TAATAAATATAAATTAAATTATAATAGTATTTAGATGCCAAT
1 TAATAAACATAAATTAAATAATAATAGTATTTAAATGCCAAT
8680369 ACAATTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (42 bp):
TAATAAACATAAATTAAATAATAATAGTATTTAAATGCCAAT
Found at i:8680524 original size:6 final size:6
Alignment explanation
Indices: 8680513--8680571 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
8680503 NNNNNNNNNN
8680513 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
8680561 TTTATT TTTAT
1 TTTATT TTTAT
8680572 ATATCAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:8684697 original size:13 final size:13
Alignment explanation
Indices: 8684681--8684705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8684671 ACCAAAAAGG
8684681 TTTTACTAAAATA
1 TTTTACTAAAATA
8684694 TTTTACTAAAAT
1 TTTTACTAAAAT
8684706 TATGACTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTACTAAAATA
Found at i:8687140 original size:26 final size:26
Alignment explanation
Indices: 8687084--8687290 Score: 110
Period size: 26 Copynumber: 7.5 Consensus size: 26
8687074 CATATAAGTG
* * *
8687084 AGCCTTTGTGGCTATCTTTGAATGGA
1 AGCCTTTGTGGCTATCTCTAAAAGGA
* *
8687110 CGCCTTTGTGGCTATCTCTAAAAAGA
1 AGCCTTTGTGGCTATCTCTAAAAGGA
* *
8687136 AGCCTTTGTGGCAATCTCTACTATAAAGA
1 AGCCTTTGTGGCTATCTCTA--A-AAGGA
* * * * *
8687165 TGCCTTTGTAGCGACCTCTGTTAAATGGA
1 AGCCTTTGTGGCTA--TCT-CTAAAAGGA
* * * * *
8687194 AGCCTTTTTGGATGTTTCTGTTAAAGGA
1 AGCCTTTGTGG--CTATCTCTAAAAGGA
*
8687222 AGCCTTTGTGGCTATATCTAAATA-GA
1 AGCCTTTGTGGCTATCTCTAAA-AGGA
* * *
8687248 CGTCTTTATGGCTATCTCTATTAAATGGA
1 AGCCTTTGTGGCTATCTCTA--AAA-GGA
8687277 AGCCTTTGTGGCTA
1 AGCCTTTGTGGCTA
8687291 ACTCAGCTAA
Statistics
Matches: 133, Mismatches: 35, Indels: 23
0.70 0.18 0.12
Matches are distributed among these distances:
26 63 0.47
27 2 0.02
28 19 0.14
29 43 0.32
30 1 0.01
31 3 0.02
32 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (26 bp):
AGCCTTTGTGGCTATCTCTAAAAGGA
Found at i:8687283 original size:29 final size:29
Alignment explanation
Indices: 8687084--8687290 Score: 141
Period size: 29 Copynumber: 7.5 Consensus size: 29
8687074 CATATAAGTG
*
8687084 AGCCTTTGTGGCTA--TCT-TTGAATGGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* *
8687110 CGCCTTTGTGGCTATCTCTA--AAA-AGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
*
8687136 AGCCTTTGTGGCAATCTCTACTATAAA--GA
1 AGCCTTTGTGGCTATCTCTA-T-TAAATGGA
* * * * *
8687165 TGCCTTTGTAGCGACCTCTGTTAAATGGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* * * * *
8687194 AGCCTTTTTGGATGTTTCTGTTAAA-GGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* *
8687222 AGCCTTTGTGGCTATATC---TAAATAGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* * *
8687248 CGTCTTTATGGCTATCTCTATTAAATGGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
8687277 AGCCTTTGTGGCTA
1 AGCCTTTGTGGCTA
8687291 ACTCAGCTAA
Statistics
Matches: 137, Mismatches: 31, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.03
26 49 0.36
27 6 0.04
28 21 0.15
29 54 0.39
30 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCCTTTGTGGCTATCTCTATTAAATGGA
Found at i:8687301 original size:29 final size:28
Alignment explanation
Indices: 8687215--8687303 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 28
8687205 ATGTTTCTGT
8687215 TAAA-GGAAGCCTTTGTGGCT-A-T-ATC
1 TAAATGGAAGCCTTTGTGGCTAACTCA-C
* * * * * *
8687240 TAAATAGACGTCTTTATGGCTATCTCTAT
1 TAAATGGAAGCCTTTGTGGCTAACTC-AC
8687269 TAAATGGAAGCCTTTGTGGCTAACTCAGC
1 TAAATGGAAGCCTTTGTGGCTAACTCA-C
8687298 TAAATG
1 TAAATG
8687304 AATGTTTTGT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
25 4 0.09
26 12 0.26
28 2 0.04
29 27 0.59
30 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (28 bp):
TAAATGGAAGCCTTTGTGGCTAACTCAC
Found at i:8691190 original size:25 final size:26
Alignment explanation
Indices: 8691145--8691207 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
8691135 TTGGCTCTCT
* *
8691145 TGAGCTTCTCA-TTTATGGCTC-GTA
1 TGAGCTTCCCATTTTATGGCTCGGAA
8691169 TGAGCTTCCCATTTTATGGCTCGGAA
1 TGAGCTTCCCATTTTATGGCTCGGAA
8691195 T-AGCTTCCCATTT
1 TGAGCTTCCCATTT
8691208 ACATGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 10 0.29
25 22 0.63
26 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (26 bp):
TGAGCTTCCCATTTTATGGCTCGGAA
Found at i:8694551 original size:15 final size:15
Alignment explanation
Indices: 8694526--8694568 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 15
8694516 AAATATTTGA
8694526 ATTTTTTAAATA-AT
1 ATTTTTTAAATATAT
8694540 ATTTTTTCAAATATAT
1 ATTTTTT-AAATATAT
8694556 ATTATTTATAAAT
1 ATT-TTT-TAAAT
8694569 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 5 0.20
17 7 0.28
18 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTTAAATATAT
Found at i:8699949 original size:25 final size:25
Alignment explanation
Indices: 8699921--8699973 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
8699911 AAGGTTAAGC
8699921 TTTAATGTATAGTTTATATATGTTA
1 TTTAATGTATAGTTTATATATGTTA
8699946 TTTAATGTATAGTTTATATATGTTA
1 TTTAATGTATAGTTTATATATGTTA
8699971 TTT
1 TTT
8699974 TATAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTAATGTATAGTTTATATATGTTA
Found at i:8701362 original size:52 final size:50
Alignment explanation
Indices: 8701247--8701364 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
8701237 TAATAAAGTT
*
8701247 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* * *
8701297 ATGCATTATGTAACTCCCATGTTAGTTTAAGTTTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
8701349 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
8701365 ATTTGTCATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:8703543 original size:12 final size:12
Alignment explanation
Indices: 8703526--8703552 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8703516 TGATATAAAC
8703526 TTTACAAAGGTG
1 TTTACAAAGGTG
8703538 TTTACAAAGGTG
1 TTTACAAAGGTG
8703550 TTT
1 TTT
8703553 GAATTATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (12 bp):
TTTACAAAGGTG
Found at i:8703952 original size:19 final size:18
Alignment explanation
Indices: 8703920--8703958 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8703910 GTGACCCTTG
*
8703920 TTTTCAAAATTTTCAAAT
1 TTTTCAAAACTTTCAAAT
*
8703938 TTTTCTAAAACTTTCTAAT
1 TTTTC-AAAACTTTCAAAT
8703957 TT
1 TT
8703959 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTCAAAACTTTCAAAT
Found at i:8705462 original size:21 final size:21
Alignment explanation
Indices: 8705438--8705480 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8705428 GCAAAATAAA
**
8705438 TAAATAAATTTAGTTTAATTC
1 TAAATAAATTTAAATTAATTC
8705459 TAAATAAATTTAAATTAATTC
1 TAAATAAATTTAAATTAATTC
8705480 T
1 T
8705481 TAATTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATAAATTTAAATTAATTC
Found at i:8706345 original size:38 final size:38
Alignment explanation
Indices: 8706303--8706429 Score: 134
Period size: 38 Copynumber: 3.3 Consensus size: 38
8706293 TGCTGACTAT
8706303 TAAAAAATAATAAAAATATTTTTATTTAAATTTAATTA
1 TAAAAAATAATAAAAATATTTTTATTTAAATTTAATTA
* * * * *
8706341 T--AAAA-AATAAAAATATTCAATTAATTAATAATGCTGACTA
1 TAAAAAATAATAAAAATATT---TTTATTTA-AAT-TTAATTA
8706381 TTAAAAAATAATAAAAATATTTTTATTTAAATTTAATTA
1 -TAAAAAATAATAAAAATATTTTTATTTAAATTTAATTA
8706420 TAAAAAATAA
1 TAAAAAATAA
8706430 AAATATTATT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
35 12 0.17
36 4 0.06
38 17 0.24
39 7 0.10
40 7 0.10
41 7 0.10
43 4 0.06
44 12 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (38 bp):
TAAAAAATAATAAAAATATTTTTATTTAAATTTAATTA
Found at i:8706355 original size:35 final size:36
Alignment explanation
Indices: 8706301--8706441 Score: 142
Period size: 35 Copynumber: 3.8 Consensus size: 36
8706291 AATGCTGACT
8706301 ATTAAAAAATAATAAAAATATTTTTATTTAAATTTA
1 ATTAAAAAATAATAAAAATATTTTTATTTAAATTTA
* * * *
8706337 ATTATAAAA-AATAAAAATATTCAATTAATTAATAATGCTGA
1 ATTAAAAAATAATAAAAATATT---TTTATTTA-AAT--TTA
8706378 CTATTAAAAAATAATAAAAATATTTTTATTTAAATTTA
1 --ATTAAAAAATAATAAAAATATTTTTATTTAAATTTA
* *
8706416 ATTATAAAA-AATAAAAATATTATTAT
1 ATTAAAAAATAATAAAAATATTTTTAT
8706442 AAAAGTATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
35 28 0.33
36 16 0.19
38 8 0.09
39 3 0.03
40 3 0.03
41 8 0.09
43 8 0.09
44 12 0.14
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (36 bp):
ATTAAAAAATAATAAAAATATTTTTATTTAAATTTA
Found at i:8706384 original size:79 final size:81
Alignment explanation
Indices: 8706268--8706436 Score: 315
Period size: 79 Copynumber: 2.1 Consensus size: 81
8706258 CATTAATAGT
8706268 AAAATATATCAATTAATTAAGATAATGCTGACTATTAAAAAATAATAAAAATATTTTTATTTAAA
1 AAAATAT-TCAATTAATTAAGATAATGCTGACTATTAAAAAATAATAAAAATATTTTTATTTAAA
8706333 TTTAATTATAAAAAATA
65 TTTAATTATAAAAAATA
8706350 AAAATATTCAATTAATT-A-ATAATGCTGACTATTAAAAAATAATAAAAATATTTTTATTTAAAT
1 AAAATATTCAATTAATTAAGATAATGCTGACTATTAAAAAATAATAAAAATATTTTTATTTAAAT
8706413 TTAATTATAAAAAATA
66 TTAATTATAAAAAATA
8706429 AAAATATT
1 AAAATATT
8706437 ATTATAAAAG
Statistics
Matches: 87, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
79 69 0.79
80 1 0.01
81 10 0.11
82 7 0.08
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (81 bp):
AAAATATTCAATTAATTAAGATAATGCTGACTATTAAAAAATAATAAAAATATTTTTATTTAAAT
TTAATTATAAAAAATA
Found at i:8709929 original size:18 final size:18
Alignment explanation
Indices: 8709908--8709943 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8709898 AACATTTCAA
*
8709908 TTAAAATGTATGTAAAAT
1 TTAAAAAGTATGTAAAAT
*
8709926 TTAAAAAGTATTTAAAAT
1 TTAAAAAGTATGTAAAAT
8709944 ATAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAAAAAGTATGTAAAAT
Found at i:8711420 original size:45 final size:47
Alignment explanation
Indices: 8711367--8711468 Score: 118
Period size: 49 Copynumber: 2.2 Consensus size: 47
8711357 TTCATATAGA
* * **
8711367 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGATTTTTCAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGATGCTTCAACCTT
* *
8711412 ATTACACTTCATCTATTTGATATTGATTAGAATAAGGTGCTTCAACCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGATGCTTCAACCTT
8711461 ACTACACT
1 ACTACACT
8711469 CCTATTAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 15 0.33
47 4 0.09
49 27 0.59
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGATGCTTCAACCTT
Found at i:8713042 original size:42 final size:42
Alignment explanation
Indices: 8712996--8713170 Score: 174
Period size: 42 Copynumber: 4.2 Consensus size: 42
8712986 GAAGCCCGAA
* * * *
8712996 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATTAT
1 GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
* * *
8713038 GGTTGAACGGAAGCTCGTAAGAGCTGAACAAAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
* * *
8713080 GGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
* * * * * *
8713122 GGTTAAACTA-AAGCTGAAAAAAGCTGAA-TGAAAACCCATTAG
1 GGTTGAAC-AGAAGCTCATAAGAGCTGAACAG-AAACCCATAAG
8713164 GGTTGAA
1 GGTTGAA
8713171 TGGAAAATCA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 112 0.99
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
Found at i:8713079 original size:21 final size:21
Alignment explanation
Indices: 8712999--8713121 Score: 68
Period size: 21 Copynumber: 5.9 Consensus size: 21
8712989 GCCCGAAGGT
* * *
8712999 TGAACAGAAGCTCATGAGAGC
1 TGAACAGAAACCCATAAGAGC
* * *
8713020 TAAACAGAAACCCATTATG-GT
1 TGAACAGAAACCCA-TAAGAGC
* * * *
8713041 TGAACGGAAGCTCGTAAGAGC
1 TGAACAGAAACCCATAAGAGC
* * *
8713062 TGAACAAAAACCCATAAGGGT
1 TGAACAGAAACCCATAAGAGC
* * * * *
8713083 TAAACTGAAGCTCAAAAGAGC
1 TGAACAGAAACCCATAAGAGC
8713104 TGAACAGAAACCCATAAG
1 TGAACAGAAACCCATAAG
8713122 GGTTAAACTA
Statistics
Matches: 67, Mismatches: 33, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (21 bp):
TGAACAGAAACCCATAAGAGC
Found at i:8713147 original size:84 final size:84
Alignment explanation
Indices: 8712996--8713167 Score: 193
Period size: 84 Copynumber: 2.0 Consensus size: 84
8712986 GAAGCCCGAA
* ** * * * * * *
8712996 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATTATGGTTGAACGGAAGCTCGTAAGAG
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTAAACGAAAGCTCGAAAAAG
8713061 CTGAACAAAAACCCATAAG
66 CTGAACAAAAACCCATAAG
* * *
8713080 GGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACTAAAGCT-GAAAAAA
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTAAACGAAAGCTCG-AAAAA
** *
8713144 GCTGAATGAAAACCCATTAG
65 GCTGAACAAAAACCCATAAG
8713164 GGTT
1 GGTT
8713168 GAATGGAAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
83 1 0.01
84 71 0.99
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (84 bp):
GGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTAAACGAAAGCTCGAAAAAG
CTGAACAAAAACCCATAAG
Found at i:8720247 original size:15 final size:15
Alignment explanation
Indices: 8720229--8720257 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8720219 TTAAATAAGT
8720229 AAATATAATAAATAG
1 AAATATAATAAATAG
8720244 AAATATAATAAATA
1 AAATATAATAAATA
8720258 ATAATACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAATATAATAAATAG
Found at i:8720294 original size:21 final size:23
Alignment explanation
Indices: 8720270--8720316 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8720260 AATACAAAGC
8720270 TAATAGT-AT-AATATAATAA-TA
1 TAATAGTAATGAATA-AATAAGTA
8720291 TAATAGTAATGAATAAATAAGTA
1 TAATAGTAATGAATAAATAAGTA
8720314 TAA
1 TAA
8720317 AAAGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
22 7 0.30
23 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (23 bp):
TAATAGTAATGAATAAATAAGTA
Found at i:8720313 original size:15 final size:14
Alignment explanation
Indices: 8720245--8720309 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
8720235 AATAAATAGA
*
8720245 AATATAATAAATAAT
1 AATATAAT-AGTAAT
*
8720260 AATACAA-AGCTAAT
1 AATATAATAG-TAAT
*
8720274 AGTATAATA-TAAT
1 AATATAATAGTAAT
8720287 AATATAATAGTAAT
1 AATATAATAGTAAT
8720301 GAATA-AATA
1 -AATATAATA
8720310 AGTATAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 13 0.32
14 17 0.41
15 11 0.27
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (14 bp):
AATATAATAGTAAT
Found at i:8727715 original size:93 final size:93
Alignment explanation
Indices: 8727541--8727716 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 93
8727531 CATTATGGCG
* * * * *
8727541 AATCTTATCTCCTTGACGTTACAGTGGAGTAGATTGAAACCACTAATCTTATCCTCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAACCACTAAACTTATCCTCTTGAAGTTG
* * *
8727606 TAGTGGGGCAGATTGAAGACGGGCTACA
66 CAGTAGAGCAGATTGAAGACGGGCTACA
*
8727634 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGCCAC-AAACATTAT-CTCTCTGAAG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAA-CCACTAAAC-TTATCCTCT-TGAAG
* *
8727696 TTGCAGTAGAGTAGGTTGAAG
63 TTGCAGTAGAGCAGATTGAAG
8727717 TAACAAACCT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
92 10 0.14
93 59 0.86
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (93 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAACCACTAAACTTATCCTCTTGAAGTTG
CAGTAGAGCAGATTGAAGACGGGCTACA
Found at i:8727723 original size:44 final size:44
Alignment explanation
Indices: 8727638--8727741 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 44
8727628 GCTACAAATC
* *
8727638 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACAAACA
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGCAACAAACA
* * ** * * *
8727682 TTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTAACAAACC
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGCAACAAACA
*
8727726 TTATCCCCCTGAAGTT
1 TTATCTCCCTGAAGTT
8727742 ATAGTAGGGC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGCAACAAACA
Found at i:8727783 original size:44 final size:44
Alignment explanation
Indices: 8727631--8727783 Score: 112
Period size: 44 Copynumber: 3.5 Consensus size: 44
8727621 AAGACGGGCT
* * * * ** * **
8727631 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCC
1 ACAAACCTTATCTCCTTGAAGTTACAGTAGAGCAGGTTGAAGTA
* * *
8727675 ACAAACATTATCT-CTCTGAAGTTGCAGTAGAGTAGGTTGAAGTA
1 ACAAACCTTATCTCCT-TGAAGTTACAGTAGAGCAGGTTGAAGTA
* * * *
8727719 ACAAACCTTATCCCCCTGAAGTTATAGTAGGGCAGGTTG-AGTA
1 ACAAACCTTATCTCCTTGAAGTTACAGTAGAGCAGGTTGAAGTA
**
8727762 TACAAGTCTTATCTCCTTGAAG
1 -ACAAACCTTATCTCCTTGAAG
8727784 GCAGTGGAGC
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 5 0.06
44 79 0.93
45 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAAACCTTATCTCCTTGAAGTTACAGTAGAGCAGGTTGAAGTA
Found at i:8728217 original size:21 final size:19
Alignment explanation
Indices: 8728183--8728221 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8728173 CCAATTATCA
*
8728183 AAGCCCATTTACAACATTAC
1 AAGCCCAATTACAA-ATTAC
8728203 AAGCCCAAATTACAAATTA
1 AAGCCC-AATTACAAATTA
8728222 AAACCTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (19 bp):
AAGCCCAATTACAAATTAC
Found at i:8731111 original size:13 final size:13
Alignment explanation
Indices: 8731093--8731117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8731083 AGTATAGTAA
8731093 AATATTTAAAAAG
1 AATATTTAAAAAG
8731106 AATATTTAAAAA
1 AATATTTAAAAA
8731118 ATTACTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATTTAAAAAG
Found at i:8741190 original size:25 final size:25
Alignment explanation
Indices: 8741162--8741209 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8741152 AATTCAAATA
*
8741162 AAATAAATTAAA-TTTGTAATAAAAG
1 AAATAAATGAAAGTTT-TAATAAAAG
*
8741187 AAATAGATGAAAGTTTTAATAAA
1 AAATAAATGAAAGTTTTAATAAA
8741210 CAACAAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (25 bp):
AAATAAATGAAAGTTTTAATAAAAG
Found at i:8745046 original size:26 final size:26
Alignment explanation
Indices: 8745010--8745060 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
8745000 TTGACAAAAG
8745010 ATGTTTTATTTCCGTGATAATCTTGA
1 ATGTTTTATTTCCGTGATAATCTTGA
8745036 ATGTTTTATTTCCGTGATAATCTTG
1 ATGTTTTATTTCCGTGATAATCTTG
8745061 GTGACTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.51
Consensus pattern (26 bp):
ATGTTTTATTTCCGTGATAATCTTGA
Found at i:8746318 original size:28 final size:29
Alignment explanation
Indices: 8746282--8746352 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
8746272 AAAAATAAAA
8746282 ATTTACCAAAATATTACAACTTTTTT-TT
1 ATTTACCAAAATATTACAACTTTTTTATT
***
8746310 ATTTACCAAAATATTACTTTTTTTTTATT
1 ATTTACCAAAATATTACAACTTTTTTATT
8746339 ATTTACCAAAATAT
1 ATTTACCAAAATAT
8746353 ATCAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTACCAAAATATTACAACTTTTTTATT
Found at i:8747212 original size:27 final size:27
Alignment explanation
Indices: 8747131--8747214 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
8747121 TTTTAGTCCT
*
8747131 TTGGCA-CATTCGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
* *
8747157 TCGGCACCATTGGTGCCGCCAATTGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
*
8747184 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
8747211 TTGG
1 TTGG
8747215 GGTGATCAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.10
27 46 0.90
ACGTcount: A:0.17, C:0.30, G:0.29, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATGGCA
Found at i:8747308 original size:27 final size:26
Alignment explanation
Indices: 8747273--8747370 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 26
8747263 TTTTTTTGAT
8747273 ATATTTTGGTAAATAATAAAAAAAGTA
1 ATATTTTGGTAAATAA-AAAAAAAGTA
8747300 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAA---GTA
* *
8747329 ATATTTTAGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAA--AGTA
*
8747357 ATATTTTGATAAAT
1 ATATTTTGGTAAAT
8747371 TTTTATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
26 7 0.11
27 16 0.26
28 15 0.24
29 24 0.39
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAAAAGTA
Found at i:8747346 original size:28 final size:28
Alignment explanation
Indices: 8747273--8747370 Score: 137
Period size: 28 Copynumber: 3.5 Consensus size: 28
8747263 TTTTTTTGAT
*
8747273 ATATTTTGGTAAATAATAAAAAA--AGTA
1 ATATTTTGGTAAATAA-AAAAAAGTTGTA
8747300 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAAT-AAAAAAAAGTTGTA
*
8747329 ATATTTTAGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
*
8747357 ATATTTTGATAAAT
1 ATATTTTGGTAAAT
8747371 TTTTATTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 20 0.31
28 28 0.44
29 16 0.25
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:8750721 original size:9 final size:10
Alignment explanation
Indices: 8750700--8750726 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8750690 ACCTAAAAAG
8750700 AAAATAAGAA
1 AAAATAAGAA
8750710 AAAATAAGAA
1 AAAATAAGAA
8750720 AAAATAA
1 AAAATAA
8750727 TACAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAATAAGAA
Found at i:8750828 original size:32 final size:32
Alignment explanation
Indices: 8750787--8750851 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8750777 CGACAATGGT
*
8750787 GCCAAAAACTTGGTTCACAACGATATGTGAAA
1 GCCAAAAACTTGGTTCACAACGAAATGTGAAA
*
8750819 GCCAAAAACTTGGTTCACGACGAAATGTGAAA
1 GCCAAAAACTTGGTTCACAACGAAATGTGAAA
8750851 G
1 G
8750852 TGTATACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (32 bp):
GCCAAAAACTTGGTTCACAACGAAATGTGAAA
Found at i:8751016 original size:19 final size:20
Alignment explanation
Indices: 8750994--8751038 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
8750984 GGATAAAATT
*
8750994 AAATTAATTAA-CTAAATGC
1 AAATGAATTAACCTAAATGC
8751013 AAATGAATTAACCTAAATGC
1 AAATGAATTAACCTAAATGC
8751033 -AATGAA
1 AAATGAA
8751039 ATGGTTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (20 bp):
AAATGAATTAACCTAAATGC
Found at i:8760904 original size:36 final size:37
Alignment explanation
Indices: 8760857--8760929 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
8760847 GTCTCTAAAT
* * *
8760857 TCACATTTCAATTC-AATTTCACTTTTTTACTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTTCACTTTCAA
*
8760893 TCACAATTCAATTCAAAATTCACTTTTTCATTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTTCACTTTCAA
8760930 GTCAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.47
Consensus pattern (37 bp):
TCACAATTCAATTCAAAATTCACTTTTTCACTTTCAA
Found at i:8761306 original size:22 final size:24
Alignment explanation
Indices: 8761263--8761306 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8761253 TAACTAAGTT
8761263 TACTTACTTTTCTACCTTAATTCA
1 TACTTACTTTTCTACCTTAATTCA
8761287 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTACCTTAATT
8761307 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTACCTTAATTCA
Found at i:8761637 original size:15 final size:15
Alignment explanation
Indices: 8761617--8761645 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8761607 TTAAAGCCTC
8761617 AAACCCTAGTTTTTT
1 AAACCCTAGTTTTTT
8761632 AAACCCTAGTTTTT
1 AAACCCTAGTTTTT
8761646 CCTTTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
AAACCCTAGTTTTTT
Found at i:8762238 original size:13 final size:13
Alignment explanation
Indices: 8762220--8762245 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8762210 TAAGTTATAT
8762220 GTGTGAAAATTTG
1 GTGTGAAAATTTG
8762233 GTGTGAAAATTTG
1 GTGTGAAAATTTG
8762246 ATAGTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
GTGTGAAAATTTG
Found at i:8764038 original size:41 final size:41
Alignment explanation
Indices: 8763993--8764071 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
8763983 CAGCGAAGTT
* *
8763993 ATTCGGACTTTATGTCTAGCAGGCT-TTGTGCCGGTGAAATA
1 ATTCGGACTTTAAGTCTAGCAGGCTAAT-TGCCGGTGAAATA
8764034 ATTCGGACTTTAAGTCTAGCAGGCTAATTGCCGGTGAA
1 ATTCGGACTTTAAGTCTAGCAGGCTAATTGCCGGTGAA
8764072 TTGAATCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
ATTCGGACTTTAAGTCTAGCAGGCTAATTGCCGGTGAAATA
Found at i:8766537 original size:51 final size:51
Alignment explanation
Indices: 8766466--8766650 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 51
8766456 CCTCACAGTA
* * ** * *
8766466 TCTTTCATCTATGCTCTTACGCTACGTACTTTATACCAGACTGTTATAGCC
1 TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
* * * *
8766517 TCTTTCATTTATGGTTTTACGCCATATACCTTATACCAAACTGTCATAGCT
1 TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
* * * *
8766568 TCTTTCATCTATTGTCTTACACCATATACCTTATACTAGACTATCATAGCC
1 TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
* * * *
8766619 TCTTTCATCTATGATTTTATGTCATATACCTT
1 TCTTTCATCTATGGTCTTACGCCATATACCTT
8766651 CATCACGGTT
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 110 1.00
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.42
Consensus pattern (51 bp):
TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
Found at i:8768701 original size:158 final size:158
Alignment explanation
Indices: 8768413--8768722 Score: 467
Period size: 158 Copynumber: 2.0 Consensus size: 158
8768403 GTTGACCTTA
* * * * *
8768413 ACAACAATATGAGGTTCCTTACGATCTAAAGGGATGAGAAGTAAGGAATGGTGCATGCCTTCTAA
1 ACAACAACATGAGGTTCCTTACAATCCAAAGGGATGAGAAGTAAGAAATGGTGCATGCCCTCTAA
*
8768478 TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCTAAGGCTCCTTCATTA
66 TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCCAAGGCTCCTTCATTA
8768543 GCTCATGAAATATCAAAGCCACACCCTC
131 GCTCATGAAATATCAAAGCCACACCCTC
* ** * * *
8768571 ACAACAACATGAGGTTCCTTATAATCCATGGGGATGAGAGGTAAGAAATGGTGTATGCCCTCTGA
1 ACAACAACATGAGGTTCCTTACAATCCAAAGGGATGAGAAGTAAGAAATGGTGCATGCCCTCTAA
* * *
8768636 TTCCCTCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATGATTCCAAGGCTCCTTTATTA
66 TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCCAAGGCTCCTTCATTA
* *
8768701 GCTCATGCATTATCAAAGCCAC
131 GCTCATGAAATATCAAAGCCAC
8768723 TATGTCCTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 135 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (158 bp):
ACAACAACATGAGGTTCCTTACAATCCAAAGGGATGAGAAGTAAGAAATGGTGCATGCCCTCTAA
TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCCAAGGCTCCTTCATTA
GCTCATGAAATATCAAAGCCACACCCTC
Found at i:8774810 original size:167 final size:166
Alignment explanation
Indices: 8774525--8774857 Score: 657
Period size: 167 Copynumber: 2.0 Consensus size: 166
8774515 TTATTTTATT
8774525 TTTTTTATATAAATATGAAAAATAAACGGTTTTTAGGTAATCTATGCCAAATGCCAAGAGACATT
1 TTTTTTATATAAATATGAAAAATAAACGGTTTTTAGGTAATCTATGCCAAATGCCAAGAGACATT
8774590 TACGTAACTTATGCTGTAGCAGTATAACATACATCCTATGTAGGATCCTGGCTTCTCTCTTTTCT
66 TACGTAACTTATGCTGTAGCAGTATAACATACATCCTATGTAGGATCCTGGCTTCTCTCTTTTCT
8774655 TCCCAATCTTGAAAGTTGAGGATCATGTTATCAGGA
131 TCCCAATCTTGAAAGTTGAGGATCATGTTATCAGGA
8774691 TTTTTTATATTAAATATGAAAAATAAACGGTTTTTAGGTAATCTATGCCAAATGCCAAGAGACAT
1 TTTTTTATA-TAAATATGAAAAATAAACGGTTTTTAGGTAATCTATGCCAAATGCCAAGAGACAT
8774756 TTACGTAACTTATGCTGTAGCAGTATAACATACATCCTATGTAGGATCCTGGCTTCTCTCTTTTC
65 TTACGTAACTTATGCTGTAGCAGTATAACATACATCCTATGTAGGATCCTGGCTTCTCTCTTTTC
8774821 TTCCCAATCTTGAAAGTTGAGGATCATGTTATCAGGA
130 TTCCCAATCTTGAAAGTTGAGGATCATGTTATCAGGA
8774858 AGGATCATAG
Statistics
Matches: 166, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 9 0.05
167 157 0.95
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (166 bp):
TTTTTTATATAAATATGAAAAATAAACGGTTTTTAGGTAATCTATGCCAAATGCCAAGAGACATT
TACGTAACTTATGCTGTAGCAGTATAACATACATCCTATGTAGGATCCTGGCTTCTCTCTTTTCT
TCCCAATCTTGAAAGTTGAGGATCATGTTATCAGGA
Found at i:8777967 original size:31 final size:30
Alignment explanation
Indices: 8777925--8778000 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
8777915 CTCAAACATT
*
8777925 CATG-AATTTTGATTTAATGTGTAATTATATA
1 CATGAAATTTTGATTT--TGTGCAATTATATA
* *
8777956 CAT-AAATTTTGATTTTGTGCAATTTTATT
1 CATGAAATTTTGATTTTGTGCAATTATATA
8777985 CATGAAATTTTGATTT
1 CATGAAATTTTGATTT
8778001 GATCTAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 14 0.35
30 12 0.30
31 14 0.35
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (30 bp):
CATGAAATTTTGATTTTGTGCAATTATATA
Found at i:8777995 original size:30 final size:31
Alignment explanation
Indices: 8777922--8778000 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
8777912 AATCTCAAAC
*
8777922 ATTCATG-AATTTTGATTTAATGTGTAATTAT
1 ATTCATGAAATTTTGATTT-ATGTGCAATTAT
* *
8777953 ATACAT-AAATTTTGATTT-TGTGCAATTTT
1 ATTCATGAAATTTTGATTTATGTGCAATTAT
8777982 ATTCATGAAATTTTGATTT
1 ATTCATGAAATTTTGATTT
8778001 GATCTAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 14 0.33
30 12 0.29
31 16 0.38
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (31 bp):
ATTCATGAAATTTTGATTTATGTGCAATTAT
Found at i:8785193 original size:16 final size:16
Alignment explanation
Indices: 8785172--8785204 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8785162 CGATTGGAGT
*
8785172 AGTTAGTTTGTTTAGA
1 AGTTAGTCTGTTTAGA
8785188 AGTTAGTCTGTTTAGA
1 AGTTAGTCTGTTTAGA
8785204 A
1 A
8785205 TTTGTTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (16 bp):
AGTTAGTCTGTTTAGA
Found at i:8790647 original size:17 final size:17
Alignment explanation
Indices: 8790625--8790657 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8790615 AAAAACATAA
8790625 TAAAATATATAAAAAAC
1 TAAAATATATAAAAAAC
8790642 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
8790658 TACACCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAATATATAAAAAAC
Found at i:8790651 original size:19 final size:20
Alignment explanation
Indices: 8790615--8790657 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8790605 TTTTAGATTT
8790615 AAAAACATAATAAAATATATA
1 AAAAACATAATAAAATATA-A
*
8790636 AAAAAC-TAA-AATATATAA
1 AAAAACATAATAAAATATAA
8790654 AAAA
1 AAAA
8790658 TACACCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 3 0.14
21 6 0.29
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAACATAATAAAATATAA
Found at i:8793360 original size:3 final size:3
Alignment explanation
Indices: 8793354--8793379 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8793344 TCAACAAATT
8793354 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
8793380 TTCTTATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:8793610 original size:19 final size:18
Alignment explanation
Indices: 8793586--8793630 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
8793576 AAATATGTTT
8793586 TTAATTTAAAATAAAATTA
1 TTAATTTAAAAT-AAATTA
*
8793605 TTAATTAAAAATAAATTA
1 TTAATTTAAAATAAATTA
8793623 --AATTTAAA
1 TTAATTTAAA
8793631 TCAAATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
18 6 0.25
19 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTTAAAATAAATTA
Found at i:8793877 original size:49 final size:49
Alignment explanation
Indices: 8793801--8793932 Score: 131
Period size: 49 Copynumber: 2.6 Consensus size: 49
8793791 TAAATTAAAG
* * * *
8793801 ACAAATAAAAACAAATTAGCTTCCTAAAACAATTAAAATTATATTATAT-TTAA
1 ACAAAT-AAAA-AAATGA-CTT-CTAAAAAAATCAAAATTAAATTATATATT-A
* *
8793854 ACAAGTAAAAATATGACTTCTAAAAAAATCAAAATTAAATTATATATTA
1 ACAAATAAAAAAATGACTTCTAAAAAAATCAAAATTAAATTATATATTA
*
8793903 ACAAATAAAAAAATGAAATTCCTAAAAAAA
1 ACAAATAAAAAAATG-ACTT-CTAAAAAAA
8793933 ATTAAATTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
49 37 0.55
50 8 0.12
51 13 0.19
52 4 0.06
53 5 0.07
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (49 bp):
ACAAATAAAAAAATGACTTCTAAAAAAATCAAAATTAAATTATATATTA
Found at i:8793928 original size:51 final size:50
Alignment explanation
Indices: 8793821--8793932 Score: 138
Period size: 49 Copynumber: 2.2 Consensus size: 50
8793811 ACAAATTAGC
* * * * * *
8793821 TTCCTAAAACAATTAAAATTATATTATATTTAAACAAGTAAAAATATGAC
1 TTCCTAAAAAAATCAAAATTAAATTATATTTAAACAAATAAAAAAATGAA
8793871 TT-CTAAAAAAATCAAAATTAAATTATATATT-AACAAATAAAAAAATGAAA
1 TTCCTAAAAAAATCAAAATTAAATTATAT-TTAAACAAATAAAAAAATG-AA
8793921 TTCCTAAAAAAA
1 TTCCTAAAAAAA
8793933 ATTAAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 37 0.70
50 7 0.13
51 9 0.17
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (50 bp):
TTCCTAAAAAAATCAAAATTAAATTATATTTAAACAAATAAAAAAATGAA
Found at i:8793940 original size:51 final size:49
Alignment explanation
Indices: 8793821--8793963 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 49
8793811 ACAAATTAGC
* * * * *
8793821 TTCCTAAAACAATTAAAATTATATTATATTTAAACAAGTAAAAATATGAC
1 TTCCTAAAAAAATT-AAATTAAATTATATTTAAACAAATAAAAAAATGAA
*
8793871 TT-CTAAAAAAATCAAAATTAAATTATATATT-AACAAATAAAAAAATGAAA
1 TTCCTAAAAAAAT-TAAATTAAATTATAT-TTAAACAAATAAAAAAATG-AA
* *
8793921 TTCCTAAAAAAAATTAAATTGAAATCTA-ATTAAAATAAATAAA
1 TTCCT-AAAAAAATTAAATT-AAAT-TATATTTAAACAAATAAA
8793964 TACTAATTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
49 36 0.47
50 7 0.09
51 8 0.11
52 23 0.30
53 2 0.03
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (49 bp):
TTCCTAAAAAAATTAAATTAAATTATATTTAAACAAATAAAAAAATGAA
Found at i:8794112 original size:15 final size:16
Alignment explanation
Indices: 8794084--8794114 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8794074 TGGTCTACGA
8794084 GTTTTAGAAAAATGGG
1 GTTTTAGAAAAATGGG
8794100 GTTTTAG-AAAATGGG
1 GTTTTAGAAAAATGGG
8794115 TTCGGGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
GTTTTAGAAAAATGGG
Found at i:8803075 original size:47 final size:47
Alignment explanation
Indices: 8803010--8803102 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
8803000 TCTCTATTTA
*
8803010 TTTTTCTTTATTTCCTTTAAATACTACTTAAAAATGTTAAAAACTAT
1 TTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAACTAT
* * *
8803057 TTTTTCTTTATTTCCTTTAAATATTAATTAAAAGTTTTAAAAACTA
1 TTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAACTA
8803103 ATCCATCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (47 bp):
TTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAACTAT
Found at i:8803673 original size:30 final size:29
Alignment explanation
Indices: 8803637--8803696 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
8803627 TAAATTAATG
8803637 ATCACATCTAATAATAACGATTAAAAAAAT
1 ATCACATCTAATAATAACGA-TAAAAAAAT
*
8803667 ATCACATTTAATAATAACGATAAAAAAAT
1 ATCACATCTAATAATAACGATAAAAAAAT
8803696 A
1 A
8803697 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (29 bp):
ATCACATCTAATAATAACGATAAAAAAAT
Found at i:8818996 original size:44 final size:44
Alignment explanation
Indices: 8818957--8819094 Score: 190
Period size: 44 Copynumber: 3.1 Consensus size: 44
8818947 ATTGAAGCCA
* *
8818957 GTGAATCCTATATCCCTGGTCAGTAGTGGAATAGGTTGAA-ATT
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
8819000 -TGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
1 GTG-AA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
* *
8819045 GTGAATCCTATCTCTCTGGTTAGCAGTGGAATAGGTTGAAGATT
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
8819089 GCGAAT
1 GTGAAT
8819095 TTTACTTTCC
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 73 0.87
45 5 0.06
46 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (44 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
Found at i:8819325 original size:51 final size:51
Alignment explanation
Indices: 8819184--8819325 Score: 122
Period size: 51 Copynumber: 2.8 Consensus size: 51
8819174 TAGCTGAAGT
* * * ** * * **
8819184 GGAGCGGATTAATGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCTAGCATTACAAC
* * * * * * * * *
8819235 GCAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAAC
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCTAGCATTACAAC
8819286 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCT
8819326 GGTTAGCAGT
Statistics
Matches: 65, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCTAGCATTACAAC
Found at i:8819517 original size:264 final size:264
Alignment explanation
Indices: 8819047--8819592 Score: 984
Period size: 264 Copynumber: 2.1 Consensus size: 264
8819037 TGAAGATTGT
*
8819047 GAATCCTATCTCTCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
1 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
* * *
8819112 ATAGCGGAGTAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGGCGTTAAGACTTAAAATAG
66 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTAAAATAG
*
8819177 CTGAAGTGGAGCGGATTAATGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
131 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
8819242 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
196 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
8819307 CAGC
261 CAGC
* **
8819311 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTGATGTT
1 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
*
8819376 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAG
66 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTAAAATAG
8819441 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
131 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
*
8819506 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGG
196 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
8819571 CAGC
261 CAGC
* *
8819575 AAATCTTATCTCCCTGGT
1 GAATCCTATCTCCCTGGT
8819593 GTTAAGACTT
Statistics
Matches: 270, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
264 270 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (264 bp):
GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTAAAATAG
CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
CAGC
Found at i:8819576 original size:169 final size:168
Alignment explanation
Indices: 8819378--8819715 Score: 561
Period size: 169 Copynumber: 2.0 Consensus size: 168
8819368 CTGATGTTAT
8819378 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
*
8819443 GAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
* * *
8819508 TAAAGCTA-AAGGTAGCGAATCTTGTTTCCCTAGCATTGC
131 TAAAGCTACAACG-A-CGAATCTTGTTTCCCCAACATTGC
* *
8819547 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCTGGTGTTAAGACTTGAAATAGCT
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
* *
8819612 GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATTTCTTTGGCATTATAGTGGAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
* *
8819677 TGAAGCTACGACGACGAATCTTGTTTCCCCAACATTGC
131 TAAAGCTACAACGACGAATCTTGTTTCCCCAACATTGC
8819715 A
1 A
8819716 ATTTAAAAGA
Statistics
Matches: 158, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
168 23 0.15
169 133 0.84
170 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (168 bp):
AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
TAAAGCTACAACGACGAATCTTGTTTCCCCAACATTGC
Found at i:8819589 original size:51 final size:51
Alignment explanation
Indices: 8819448--8819589 Score: 131
Period size: 51 Copynumber: 2.8 Consensus size: 51
8819438 TAGCTGAAGT
* * * ** * * *
8819448 GGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTACAGC
* * * * * * * *
8819499 GCAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGC
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTACAGC
*
8819550 GGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
8819590 GGTGTTAAGA
Statistics
Matches: 67, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTACAGC
Found at i:8828262 original size:150 final size:150
Alignment explanation
Indices: 8827935--8828294 Score: 515
Period size: 150 Copynumber: 2.4 Consensus size: 150
8827925 AAGTATGAGA
** * *
8827935 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTG
1 TGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTG
* * *
8828000 GCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATGAGAG
66 GCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAG
*
8828065 GTCCCATGTAAGACCATGTC
131 GTCCCACGTAAGACCATGTC
** * *
8828085 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTG
1 TGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTG
8828150 GCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA-GGACGTTGGCACCAAGATGAGA
66 GCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG-CGTTGGCACCAAGATGAGA
*
8828214 GGTCCCCCGTAAGACCATGTC
130 GGTCCCACGTAAGACCATGTC
* * ** * * * *
8828235 TGGGACATGGCATGGGCACCTATATGAGAACTCTCATGTAAGATCATATCTGGGATATGG
1 TGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
8828295 CATTGGCAGT
Statistics
Matches: 192, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
149 2 0.01
150 190 0.99
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (150 bp):
TGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTG
GCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAG
GTCCCACGTAAGACCATGTC
Found at i:8828277 original size:50 final size:50
Alignment explanation
Indices: 8827935--8828244 Score: 559
Period size: 50 Copynumber: 6.2 Consensus size: 50
8827925 AAGTATGAGA
8827935 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
8827985 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
8828035 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
8828085 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
8828135 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * **
8828185 TGGGACA-GGACGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTC
1 TGGGACATGG-TGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
8828235 TGGGACATGG
1 TGGGACATGG
8828245 CATGGGCACC
Statistics
Matches: 253, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
49 2 0.01
50 249 0.98
51 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (50 bp):
TGGGACATGGTGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
Found at i:8828336 original size:49 final size:50
Alignment explanation
Indices: 8827966--8828351 Score: 177
Period size: 50 Copynumber: 7.7 Consensus size: 50
8827956 AGATGAGAGG
* * ** * * * * **
8827966 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * ** * * * * **
8828016 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * ** * * * * **
8828066 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * ** * * * * **
8828116 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * * * * * **
8828166 TCCCATGTAAGACCATGTCTGGGACA-GGACGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGATATGG-CATTGGCACCTACAAGAGAAC
** * * * * *
8828216 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* * *
8828266 TCTCATGTAAGA-TCATATCTGGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACT-ATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
* *
8828314 ATCCCATGTAAGACTATGTCTGGGATATAGCTTTGGCA
1 -TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCA
8828352 TGTTATATTC
Statistics
Matches: 306, Mismatches: 25, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
48 3 0.01
49 38 0.12
50 263 0.86
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACTATGTCTGGGATATGGCATTGGCACCTACAAGAGAAC
Found at i:8831824 original size:26 final size:25
Alignment explanation
Indices: 8831793--8831843 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8831783 ACAAAATTTC
*
8831793 TCAAAAATTTACCAAGGGTAAAATTG
1 TCAAAAATTTA-CAAGAGTAAAATTG
* *
8831819 TCAAAATTTTACTAGAGTAAAATTG
1 TCAAAAATTTACAAGAGTAAAATTG
8831844 GGATGAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (25 bp):
TCAAAAATTTACAAGAGTAAAATTG
Found at i:8839293 original size:12 final size:13
Alignment explanation
Indices: 8839276--8839304 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8839266 CTCATACATG
8839276 AATAAATAAA-GC
1 AATAAATAAATGC
8839288 AATAAATAAATGC
1 AATAAATAAATGC
8839301 AATA
1 AATA
8839305 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:8846069 original size:39 final size:39
Alignment explanation
Indices: 8846036--8846166 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
8846026 TTTAAGCAAG
* * *
8846036 TATCACATTACACATATAATCACATAACATTTAAGCATA
1 TATCACAATACTCATATAATCACATAACATTCAAGCATA
8846075 TATCACAATACTCATATAATCACATAA-AGTTCAAGCATA
1 TATCACAATACTCATATAATCACATAACA-TTCAAGCATA
* * *
8846114 TATCACAGTACTTATATAATCACATATCATTCAAGCATA
1 TATCACAATACTCATATAATCACATAACATTCAAGCATA
*
8846153 TATCATAATACTCA
1 TATCACAATACTCA
8846167 AAAACATGTT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 79 0.98
40 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
TATCACAATACTCATATAATCACATAACATTCAAGCATA
Found at i:8856665 original size:72 final size:73
Alignment explanation
Indices: 8856578--8856723 Score: 285
Period size: 72 Copynumber: 2.0 Consensus size: 73
8856568 AAAAAAAATT
8856578 CTTACTTGGTAGCTAGCTATGTAATAAAAAAAATTTATTATAATAATATAAATTAAATAGAAAAA
1 CTTACTTGGTAGCTAGCTATGTAATAAAAAAAATTTATTATAATAATATAAATTAAATAGAAAAA
8856643 CTTTAACA
66 CTTTAACA
8856651 CTTACTTGGT-GCTAGCTATGTAATAAAAAAAATTTATTATAATAATATAAATTAAATAGAAAAA
1 CTTACTTGGTAGCTAGCTATGTAATAAAAAAAATTTATTATAATAATATAAATTAAATAGAAAAA
8856715 CTTTAACA
66 CTTTAACA
8856723 C
1 C
8856724 AATTAATAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 63 0.86
73 10 0.14
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (73 bp):
CTTACTTGGTAGCTAGCTATGTAATAAAAAAAATTTATTATAATAATATAAATTAAATAGAAAAA
CTTTAACA
Found at i:8869705 original size:13 final size:13
Alignment explanation
Indices: 8869689--8869730 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8869679 ATCTACTTTA
*
8869689 TATAATCATTTCG
1 TATAACCATTTCG
* *
8869702 TATAACCATCTCA
1 TATAACCATTTCG
8869715 TATAACCATTTCG
1 TATAACCATTTCG
8869728 TAT
1 TAT
8869731 TATACATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (13 bp):
TATAACCATTTCG
Found at i:8869725 original size:51 final size:54
Alignment explanation
Indices: 8869630--8869730 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 54
8869620 CTATATAAAC
* * *
8869630 ACTTTATATAATTATTTTCCATATAACCAGTTCATATGATCATTT-GTATATCT
1 ACTTTATATAATCATTTTCCATATAACCAGTTCATATAACCATTTCGTATATCT
*
8869683 ACTTTATATAATCA-TTT-CGTATAACCA-TCTCATATAACCATTTCGTAT
1 ACTTTATATAATCATTTTCCATATAACCAGT-TCATATAACCATTTCGTAT
8869731 TATACATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.02
51 21 0.50
52 7 0.17
53 13 0.31
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.45
Consensus pattern (54 bp):
ACTTTATATAATCATTTTCCATATAACCAGTTCATATAACCATTTCGTATATCT
Found at i:8870954 original size:43 final size:43
Alignment explanation
Indices: 8870795--8870954 Score: 259
Period size: 43 Copynumber: 3.7 Consensus size: 43
8870785 GAATCATATA
* * *
8870795 CGATGCCAATCTCCCAAACATAGTCTTACACG-TTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
* *
8870837 TGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
*
8870880 TGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
8870923 CGATGCCAATGTCCCAGACATGGTCTTACACG
1 CGATGCCAATGTCCCAGACATGGTCTTACACG
8870955 AAATCACACC
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 27 0.25
43 83 0.75
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
Found at i:8871113 original size:30 final size:30
Alignment explanation
Indices: 8871077--8871169 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
8871067 ATCCAATGCT
*
8871077 CAAATCAATTCAGCAATATATAAAAATATA
1 CAAATCAATTCGGCAATATATAAAAATATA
* * ***
8871107 CAAATCAATTTGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATATATAAAAATATA
*
8871137 AAAATCAATTCGGCAATATATAAAACATATA
1 CAAATCAATTCGGCAATATATAAAA-ATATA
8871168 CA
1 CA
8871170 TTTGAATTCA
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
30 43 0.88
31 6 0.12
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATAAAAATATA
Found at i:8872336 original size:45 final size:45
Alignment explanation
Indices: 8872287--8872529 Score: 215
Period size: 45 Copynumber: 5.4 Consensus size: 45
8872277 TCTTTCAGTC
* * * *
8872287 ATGGTCTTATTTATTTTCGACATGATGTCATAGTGTCATTCAAAT
1 ATGGTCTTATTCATTTTCGTCATGATGCCATAGTGTCATTCAACT
* * * * * *
8872332 ATGGTATT-TTTATTTTTTGTCATGTTGCCATAGTTTCTTTCAACT
1 ATGGTCTTATTCA-TTTTCGTCATGATGCCATAGTGTCATTCAACT
* * *
8872377 ATGGTTTTATTCA-TTTCTGTCATGTTGCCATAATGTCATTCAACT
1 ATGGTCTTATTCATTTTC-GTCATGATGCCATAGTGTCATTCAACT
* * * *
8872422 ATGGTCTTATTCATTTCCGTTAT-AGTGTCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTTTCGTCATGA-TGCCATAGTGTCATTCAACT
* * * *
8872467 ATGGTCTTATTCATTTTCAGT-ATAATGCCATATTATCTTTCAACT
1 ATGGTCTTATTCATTTTC-GTCATGATGCCATAGTGTCATTCAACT
* *
8872512 ATAGTCTTATTCGTTTTC
1 ATGGTCTTATTCATTTTC
8872530 CAAGCCAATG
Statistics
Matches: 164, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
44 7 0.04
45 148 0.90
46 9 0.05
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (45 bp):
ATGGTCTTATTCATTTTCGTCATGATGCCATAGTGTCATTCAACT
Found at i:8889730 original size:15 final size:15
Alignment explanation
Indices: 8889712--8889743 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8889702 CAACTCGAGC
8889712 TATTGTTTGCTAACG
1 TATTGTTTGCTAACG
8889727 TATTGTTTGCTAACG
1 TATTGTTTGCTAACG
8889742 TA
1 TA
8889744 GTCAGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (15 bp):
TATTGTTTGCTAACG
Found at i:8892515 original size:21 final size:22
Alignment explanation
Indices: 8892476--8892517 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8892466 TTTGGTGGTG
*
8892476 CTTTTTTCTTAAATTTTCCCTGC
1 CTTTTTTCTT-AATCTTCCCTGC
8892499 CTTTTTTCTT-ATCTTCCCT
1 CTTTTTTCTTAATCTTCCCT
8892518 TGTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.10, C:0.29, G:0.02, T:0.60
Consensus pattern (22 bp):
CTTTTTTCTTAATCTTCCCTGC
Found at i:8906771 original size:17 final size:17
Alignment explanation
Indices: 8906745--8906779 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8906735 TTATTTTTAA
*
8906745 TAAAAATTTTGTAATTT
1 TAAAAATTTTATAATTT
*
8906762 TAAAACTTTTATAATTT
1 TAAAAATTTTATAATTT
8906779 T
1 T
8906780 TATGATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TAAAAATTTTATAATTT
Found at i:8909139 original size:15 final size:15
Alignment explanation
Indices: 8909108--8909156 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
8909098 TTTTAATTTA
*
8909108 ATAAT-ATTTAGAAT
1 ATAATAATTTATAAT
8909122 ATAATAACTTT-TAAT
1 ATAATAA-TTTATAAT
8909137 AT-ATAATTTAATAAT
1 ATAATAATTT-ATAAT
8909152 ATAAT
1 ATAAT
8909157 GATATTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 3 0.10
14 9 0.31
15 12 0.41
16 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
ATAATAATTTATAAT
Found at i:8909760 original size:23 final size:23
Alignment explanation
Indices: 8909716--8909763 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8909706 TATCTATTTA
* *
8909716 TAGTATTAAATATTAGTTTTAAT
1 TAGTATTAAATATTAATATTAAT
8909739 TAGTATATAAATA-TAATATTAAT
1 TAGTAT-TAAATATTAATATTAAT
8909762 TA
1 TA
8909764 AGTGATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
TAGTATTAAATATTAATATTAAT
Found at i:8913513 original size:42 final size:42
Alignment explanation
Indices: 8913457--8913622 Score: 248
Period size: 42 Copynumber: 4.0 Consensus size: 42
8913447 ACTGAGATGT
* *
8913457 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
1 GATT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
8913500 GATTCGTGTAAGACCATGTCTGGGATATTGGCATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
8913542 GATTCGTGTAAGACCATGTCTGGGACATTGACATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
8913584 GATTCGTGTAAGACCATAG-CT-GG-CTATTGGCATCGATAT
1 GATTCGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATAT
8913623 ATGATAGCAT
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.01
41 15 0.13
42 94 0.82
43 5 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:8930985 original size:33 final size:32
Alignment explanation
Indices: 8930938--8931020 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
8930928 GGACTGTGTA
* * * *
8930938 TTGTGTGTATTGTCCCAGTGGACTTACTCCGT
1 TTGTGTTTACTGTCCCAGCGAACTTACTCCGT
*
8930970 TCTGTGTTTACTGTCCCAGCGAACTTACTCTGT
1 T-TGTGTTTACTGTCCCAGCGAACTTACTCCGT
8931003 TTCGTGTTTACTGTCCCA
1 TT-GTGTTTACTGTCCCA
8931021 AAAAACTTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
32 2 0.05
33 42 0.95
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.41
Consensus pattern (32 bp):
TTGTGTTTACTGTCCCAGCGAACTTACTCCGT
Found at i:8931028 original size:33 final size:33
Alignment explanation
Indices: 8930959--8931033 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
8930949 GTCCCAGTGG
* ***
8930959 ACTTACTCCGTTCTGTGTTTACTGTCCCAGCGA
1 ACTTACTCTGTTCTGTGTTTACTGTCCCAAAAA
8930992 ACTTACTCTGTT-TCGTGTTTACTGTCCCAAAAA
1 ACTTACTCTGTTCT-GTGTTTACTGTCCCAAAAA
8931025 ACTTACTCT
1 ACTTACTCT
8931034 ATAGATGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (33 bp):
ACTTACTCTGTTCTGTGTTTACTGTCCCAAAAA
Found at i:8931120 original size:7 final size:7
Alignment explanation
Indices: 8931109--8931138 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8931099 GTCTATGGTT
8931109 TTATACC
1 TTATACC
*
8931116 GTATACC
1 TTATACC
8931123 TTATACC
1 TTATACC
8931130 TTATACC
1 TTATACC
8931137 TT
1 TT
8931139 GCCGCCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (7 bp):
TTATACC
Found at i:8939347 original size:22 final size:22
Alignment explanation
Indices: 8939317--8939368 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
8939307 AATGACTAAG
* * *
8939317 AGCCGTAAACAGGATAACTATA
1 AGCCATAAACAGAATAACTACA
* *
8939339 AGCTATAAACAGAATGACTACA
1 AGCCATAAACAGAATAACTACA
8939361 AGCCATAA
1 AGCCATAA
8939369 GTACAGTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAACTACA
Found at i:8939411 original size:32 final size:32
Alignment explanation
Indices: 8939360--8939495 Score: 177
Period size: 32 Copynumber: 4.3 Consensus size: 32
8939350 GAATGACTAC
* * *
8939360 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
8939391 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
8939423 CAA-CCATCAGTAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
8939455 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
8939487 AAGCTATCA
1 AAGCCATCA
8939496 ATAGCATCGC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
31 11 0.12
32 80 0.86
33 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:8939530 original size:26 final size:26
Alignment explanation
Indices: 8939494--8939554 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
8939484 ACAAAGCTAT
* *
8939494 CAATAGCATCGCAGCAAAGCTACCGG
1 CAATAGTATCGCAGCAAAGCTACCAG
*
8939520 CAATAGTATCGCAGCAAAGCTGCCAG
1 CAATAGTATCGCAGCAAAGCTACCAG
*
8939546 TAATAGTAT
1 CAATAGTAT
8939555 ATGTGGCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (26 bp):
CAATAGTATCGCAGCAAAGCTACCAG
Found at i:8939709 original size:24 final size:24
Alignment explanation
Indices: 8939670--8939803 Score: 135
Period size: 24 Copynumber: 5.6 Consensus size: 24
8939660 CCATGCACAG
**
8939670 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATTTAAATCATAGACA
* *
8939694 AATTAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCATAGACA
* *
8939718 TATCAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCATAGACA
* *
8939742 AATCAGTCATTTACATC-TCAAACA
1 AATCAGTCATTTAAATCAT-AGACA
* * * *
8939766 AATTAATCATTTACATCATAGGCA
1 AATCAGTCATTTAAATCATAGACA
*
8939790 AATCAATCATTTAA
1 AATCAGTCATTTAA
8939804 CCCCGAAAGG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 91 0.99
25 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (24 bp):
AATCAGTCATTTAAATCATAGACA
Found at i:8939734 original size:48 final size:48
Alignment explanation
Indices: 8939670--8939803 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
8939660 CCATGCACAG
** * *
8939670 AATCAGTCATACAAATCATAGACAAATTAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAAATCACAAACA
* * * *
8939718 TATCAGTCATTTAAATCACAGACAAATCAGTCATTTACATCTCAAACA
1 AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAAATCACAAACA
* * * * *
8939766 AATTAATCATTTACATCATAGGCAAATCAATCATTTAA
1 AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAA
8939804 CCCCGAAAGG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (48 bp):
AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAAATCACAAACA
Found at i:8939891 original size:54 final size:54
Alignment explanation
Indices: 8939824--8940326 Score: 562
Period size: 54 Copynumber: 9.3 Consensus size: 54
8939814 CAAAATAGTT
*
8939824 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* * * *
8939878 ATTTTACCTTACAAGGGCATTACGATCATTTTAACCTATAGGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* * * *
8939932 ATTTTACCCTACAGGGGCATTACGGTTATTTTACCTTATAGGAGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* ** * * *
8939986 ATTTTACCCTACAGGGGCATTATTGTCATTTTACTCTATAGGGACATTACAGTC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* * * **
8940040 ATTTTACCCTACAGGGGAATTACGGTCATTTTACCCTATAGGAGCATTATAGTC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* ** * * *
8940094 ATTTTACCCTACAGGGGCATTATAGTCATTTTACCCTACAGAGGCATTATGGTC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* * * *
8940148 ATTTTACCCTACAAGAGCATTACGGTCATTTTACCCTACAGGGGCGTTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* ****
8940202 ATTTTACCCTAC-AGGAGCATTACGGTCATTTTATCCTATAAAAACATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
* * * ** * * *
8940256 ATTTTACCC-ATCGAGGGTATTTCGGTCATTTTA-CCTACCGAGGGTATTTCGATC
1 ATTTTACCCTA-CAAGGGCATTACGGTCATTTTACCCTATAG-GGGCATTACGGTC
*
8940310 ATTTTACCCTTCAAGGG
1 ATTTTACCCTACAAGGG
8940327 TATTTTGGTA
Statistics
Matches: 379, Mismatches: 65, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
53 7 0.02
54 369 0.97
55 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (54 bp):
ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGGTC
Found at i:8940331 original size:27 final size:27
Alignment explanation
Indices: 8939824--8940326 Score: 507
Period size: 27 Copynumber: 18.6 Consensus size: 27
8939814 CAAAATAGTT
8939824 ATTTTACCCTACAAGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
8939851 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
8939878 ATTTTACCTTACAAGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * * *
8939905 ATTTTAACCTATAGGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
8939932 ATTTTACCCTACAGGGGCATTACGGTT
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
8939959 ATTTTACCTTA-TAGGAGCATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* **
8939986 ATTTTACCCTACAGGGGCATTATTGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
8940013 ATTTTACTCTA-TAGGGACATTACAGTC
1 ATTTTACCCTACAAGGG-CATTACGGTC
* *
8940040 ATTTTACCCTACAGGGGAATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* **
8940067 ATTTTACCCTA-TAGGAGCATTATAGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* **
8940094 ATTTTACCCTACAGGGGCATTATAGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
8940121 ATTTTACCCTAC-AGAGGCATTATGGTC
1 ATTTTACCCTACAAG-GGCATTACGGTC
*
8940148 ATTTTACCCTACAAGAGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
8940175 ATTTTACCCTACAGGGGCGTTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
8940202 ATTTTACCCTAC-AGGAGCATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* * ***
8940229 ATTTTATCCTATAAAAACATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
8940256 ATTTTACCC-ATCGAGGGTATTTCGGTC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
* * * *
8940283 ATTTTA-CCTACCGAGGGTATTTCGATC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
*
8940310 ATTTTACCCTTCAAGGG
1 ATTTTACCCTACAAGGG
8940327 TATTTTGGTA
Statistics
Matches: 397, Mismatches: 66, Indels: 26
0.81 0.13 0.05
Matches are distributed among these distances:
26 13 0.03
27 371 0.93
28 13 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGCATTACGGTC
Found at i:8940340 original size:27 final size:27
Alignment explanation
Indices: 8940251--8940342 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
8940241 AAAAACATTA
*
8940251 CGGTCATTTTACCCATCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
*
8940278 CGGTCATTTTA-CCTACCGAGGGTATTT
1 CGGTCATTTTACCCT-TCGAGGGTATTT
* *
8940305 CGATCATTTTACCCTTCAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
8940332 TGGTAATTTTA
1 CGGTCATTTTA
8940343 AAACCTTTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.04
27 50 0.91
28 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
CGGTCATTTTACCCTTCGAGGGTATTT
Found at i:8941567 original size:20 final size:20
Alignment explanation
Indices: 8941542--8941583 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
8941532 TGCATGCATA
8941542 TTACACATACCTTAAATTGG
1 TTACACATACCTTAAATTGG
8941562 TTACACATACCTTAAATTGG
1 TTACACATACCTTAAATTGG
8941582 TT
1 TT
8941584 TTTTAGGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TTACACATACCTTAAATTGG
Done.