Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 103 of 136
Found at i:34793117 original size:13 final size:13
Alignment explanation
Indices: 34793080--34793130 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
34793070 TTCTTCATTG
*
34793080 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
* *
34793093 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
*
34793106 CTTTTGAGAAGTA
1 CTTTTGAAAAGTA
34793119 CTTTTGAAAAGT
1 CTTTTGAAAAGT
34793131 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:34794819 original size:17 final size:17
Alignment explanation
Indices: 34794799--34794855 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
34794789 AATAGTTGGA
34794799 TTAACGGAGATGCCAAC
1 TTAACGGAGATGCCAAC
* **
34794816 TTAA-GGAAAATGGTATAGC
1 TTAACGG-AGATGCCA-A-C
34794835 TTAACGGAGATGCCAAC
1 TTAACGGAGATGCCAAC
34794852 TTAA
1 TTAA
34794856 GGAAAAGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 2 0.07
17 14 0.47
18 2 0.07
19 10 0.33
20 2 0.07
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (17 bp):
TTAACGGAGATGCCAAC
Found at i:34794846 original size:36 final size:36
Alignment explanation
Indices: 34794799--34794868 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
34794789 AATAGTTGGA
*
34794799 TTAACGGAGATGCCAACTTAAGGAAAATGGTATAGC
1 TTAACGGAGATGCCAACTTAAGGAAAAGGGTATAGC
34794835 TTAACGGAGATGCCAACTTAAGGAAAAGGGTATA
1 TTAACGGAGATGCCAACTTAAGGAAAAGGGTATA
34794869 ATTTAGGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (36 bp):
TTAACGGAGATGCCAACTTAAGGAAAAGGGTATAGC
Found at i:34797772 original size:29 final size:29
Alignment explanation
Indices: 34797739--34797798 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
34797729 TAAAGGAGCC
34797739 CTTTAAAGAACCCACCATAAATGTATAAT
1 CTTTAAAGAACCCACCATAAATGTATAAT
34797768 CTTTAAAGAACCCACCATAAATGTATAAT
1 CTTTAAAGAACCCACCATAAATGTATAAT
34797797 CT
1 CT
34797799 ATTTGGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (29 bp):
CTTTAAAGAACCCACCATAAATGTATAAT
Found at i:34803169 original size:13 final size:14
Alignment explanation
Indices: 34803153--34803183 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
34803143 ATTTTAATCC
34803153 ATTATTTAATTA-T
1 ATTATTTAATTATT
34803166 ATTATTTAATTATT
1 ATTATTTAATTATT
34803180 ATTA
1 ATTA
34803184 GATTCCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTTAATTATT
Found at i:34813394 original size:3 final size:3
Alignment explanation
Indices: 34813386--34813423 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34813376 TCATTTTGTT
34813386 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
34813424 TGAAGTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:34813568 original size:3 final size:3
Alignment explanation
Indices: 34813560--34813586 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34813550 TACAAGGATT
34813560 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
34813587 ACACTGGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:34819183 original size:355 final size:356
Alignment explanation
Indices: 34818517--34819231 Score: 1414
Period size: 355 Copynumber: 2.0 Consensus size: 356
34818507 ATTACCTACC
34818517 TCCACTAATTACATAGAAACTTGAAATTTTAGCTTGTAAACTTATACAAAGTTGTGTTTACAGCT
1 TCCACTAATTACATAGAAACTTGAAATTTTAGCTTGTAAACTTATACAAAGTTGTGTTTACAGCT
34818582 CATACATAAGCTAACTACATCAATTAAAGGCCTAACTTAGTTAGAAATGAACTAAGACTCATTTC
66 CATACATAAGCTAACTACATCAATTAAAGGCCTAACTTAGTTAGAAATGAACTAAGACTCATTTC
34818647 ATTAACTAAAGTTTACAAAATAAGCATAAATAACTTGTTGAAGCTGCTCCTGCACAGCTTGGTCT
131 ATTAACTAAAGTTTACAAAATAAGCATAAATAACTTGTTGAAGCTGCTCCTGCACAGCTTGGTCT
34818712 TCATGGCCTGCTTGCTGTTGAATGTTTGCTGCATACTGACCAACTTCATCAGTTTCTCACAAGGA
196 TCATGGCCTGCTTGCTGTTGAATGTTTGCTGCATACTGACCAACTTCATCAGTTTCTCACAAGGA
34818777 CGATTCCCTTTTCCTAATCCAGTTTCCATTTTCGTGGGTCTTTGCAGATGAATAGATTTTGACAA
261 CGATTCCCTTTTCCTAATCCAGTTTCCATTTTCGTGGGTCTTTGCAGATGAATAGATTTTGACAA
34818842 GTTTTAGTTTTAGTTTAATGACTCCATGGTG
326 GTTTTAGTTTTAGTTTAATGACTCCATGGTG
34818873 TCCACTAATTACAT-GAAACTTGAAATTTTAGCTTGTAAACTTATACAAAGTTGTGTTTACAGCT
1 TCCACTAATTACATAGAAACTTGAAATTTTAGCTTGTAAACTTATACAAAGTTGTGTTTACAGCT
*
34818937 CATACATAAGCTAACTACATCAATTAAAGGGCTAACTTAGTTAGAAATGAACTAAGACTCATTTC
66 CATACATAAGCTAACTACATCAATTAAAGGCCTAACTTAGTTAGAAATGAACTAAGACTCATTTC
34819002 ATTAACTAAAGTTTACAAAATAAGCATAAATAACTTGTTGAAGCTGCTCCTGCACAGCTTGGTCT
131 ATTAACTAAAGTTTACAAAATAAGCATAAATAACTTGTTGAAGCTGCTCCTGCACAGCTTGGTCT
34819067 TCATGGCCTGCTTGCTGTTGAATGTTTGCTGCATACTGACCAACTTCATCAGTTTCTCACAAGGA
196 TCATGGCCTGCTTGCTGTTGAATGTTTGCTGCATACTGACCAACTTCATCAGTTTCTCACAAGGA
34819132 CGATTCCCTTTTCCTAATCCAGTTTCCATTTTCGTGGGTCTTTGCAGATGAATAGATTTTGACAA
261 CGATTCCCTTTTCCTAATCCAGTTTCCATTTTCGTGGGTCTTTGCAGATGAATAGATTTTGACAA
34819197 GTTTTAGTTTTAGTTTAATGACTCCATGGTG
326 GTTTTAGTTTTAGTTTAATGACTCCATGGTG
34819228 TCCA
1 TCCA
34819232 ACAACCGGTT
Statistics
Matches: 358, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
355 344 0.96
356 14 0.04
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (356 bp):
TCCACTAATTACATAGAAACTTGAAATTTTAGCTTGTAAACTTATACAAAGTTGTGTTTACAGCT
CATACATAAGCTAACTACATCAATTAAAGGCCTAACTTAGTTAGAAATGAACTAAGACTCATTTC
ATTAACTAAAGTTTACAAAATAAGCATAAATAACTTGTTGAAGCTGCTCCTGCACAGCTTGGTCT
TCATGGCCTGCTTGCTGTTGAATGTTTGCTGCATACTGACCAACTTCATCAGTTTCTCACAAGGA
CGATTCCCTTTTCCTAATCCAGTTTCCATTTTCGTGGGTCTTTGCAGATGAATAGATTTTGACAA
GTTTTAGTTTTAGTTTAATGACTCCATGGTG
Found at i:34824766 original size:18 final size:17
Alignment explanation
Indices: 34824738--34824772 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34824728 NNTATTAAGA
*
34824738 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34824755 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34824773 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:34825017 original size:45 final size:44
Alignment explanation
Indices: 34824936--34825026 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
34824926 ACATCTATTC
*
34824936 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
34824980 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
34825025 CA
1 CA
34825027 CCTCTATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:34825026 original size:16 final size:16
Alignment explanation
Indices: 34825005--34825058 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
34824995 TTGATTTGCT
34825005 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
34825021 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
34825037 ATTACGCCTCTAATCC
1 ATTACACCTCTATTCC
*
34825053 AATACA
1 ATTACA
34825059 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.35, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34838699 original size:3 final size:3
Alignment explanation
Indices: 34838691--34838770 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
34838681 TTCATTTCCT
34838691 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
34838739 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34838771 GCATGATACA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34841843 original size:17 final size:16
Alignment explanation
Indices: 34841811--34841856 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
34841801 GTTTAGAATA
34841811 GTTGTTCAGAACAACT
1 GTTGTTCAGAACAACT
*
34841827 GTTGTTCGAGAATAACT
1 GTTGTTC-AGAACAACT
*
34841844 -ATGTTCAGAACAA
1 GTTGTTCAGAACAA
34841857 GGTTTTAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 6 0.23
16 12 0.46
17 8 0.31
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (16 bp):
GTTGTTCAGAACAACT
Found at i:34847086 original size:43 final size:43
Alignment explanation
Indices: 34846935--34847107 Score: 167
Period size: 43 Copynumber: 4.1 Consensus size: 43
34846925 AAAACTCGTA
* * * *
34846935 CGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
* * *
34846978 CAATGCC-ACTGTCCCAGGCAG-GGTCTTACACG--AA-TCAAAT
1 CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAAT
* * *
34847018 ACGATGCCGATGTCCCAGACATGGTCTTACACGTAAACACAAAT
1 -CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
* * *
34847062 CGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACATAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
34847105 CGA
1 CGA
34847108 AAATTATATG
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
40 3 0.03
41 26 0.25
42 3 0.03
43 66 0.63
44 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
Found at i:34847087 original size:84 final size:84
Alignment explanation
Indices: 34846933--34847095 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
34846923 AGAAAACTCG
* * * * * *
34846933 TACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATATCAATGCCACTGTCCCAGGCA
1 TACGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCAATGCCACTGTCCCAGACA
34846998 GGGTCTTACACGAATCAAA
66 GGGTCTTACACGAATCAAA
* * * *
34847017 TACGATGCCGATGTCCCAGACATGGTCTTACACGTAAACACAAATCGATGCCAAC-GTCCTAGAC
1 TACGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCAATGCC-ACTGTCCCAGAC
34847081 -GTGGTCTTACACGAA
65 AG-GGTCTTACACGAA
34847096 AACACATATC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 64 0.96
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (84 bp):
TACGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCAATGCCACTGTCCCAGACA
GGGTCTTACACGAATCAAA
Found at i:34849748 original size:15 final size:15
Alignment explanation
Indices: 34849722--34849766 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
34849712 AGATTAAACC
34849722 TTAATT-AACCTTAA
1 TTAATTAAACCTTAA
* *
34849736 TTAGTTAAACCTTAG
1 TTAATTAAACCTTAA
*
34849751 TTAATTAAATCTTAA
1 TTAATTAAACCTTAA
34849766 T
1 T
34849767 CACAATTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (15 bp):
TTAATTAAACCTTAA
Found at i:34853669 original size:110 final size:104
Alignment explanation
Indices: 34853463--34853817 Score: 413
Period size: 110 Copynumber: 3.4 Consensus size: 104
34853453 AAAAAAAAGA
* * *
34853463 AAAAAGAAAAAAAAAATTTTGGGTGCTGGTCTGTCAATGGCCGGAACCCAGTACAATTTTTTAAA
1 AAAAA-AATAAAAAAATTTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA---TTTAAA
* * *
34853528 AAAAAATTCTTTTTCTTTGTGTCAGAGTCAGATATCGGTATACG
61 AAAAAATTTTTTTTCTTTGTGTCAGAATCAGATATCAGTATACG
* *
34853572 AAAAAAATAAAAAAATTTTGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAT
1 AAAAAAATAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
34853637 ATTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
66 ATTTTTTTTC-----TTT-GTGTCAGAATCAGATATCAGTATACG
* *
34853682 AAAAAAATAAAAAAATTCTGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAATTTAAAAAAAA
1 AAAAAAATAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
34853747 A---------TTTGTGTCAGAATCAGATATCAGTATACG
66 ATTTTTTTTCTTTGTGTCAGAATCAGATATCAGTATACG
* * *
34853777 AAAAAAATAAAAAAAAATTTGGGTGCTGACCTGTAAATGGC
1 AAAAAAAT--AAAAAAATTTTGGTGCTGGCCTGTCAATGGC
34853818 ATGAAAAAAA
Statistics
Matches: 222, Mismatches: 16, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
95 34 0.15
96 3 0.01
97 27 0.12
104 19 0.09
107 32 0.14
108 13 0.06
109 8 0.04
110 86 0.39
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (104 bp):
AAAAAAATAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
ATTTTTTTTCTTTGTGTCAGAATCAGATATCAGTATACG
Found at i:34857216 original size:36 final size:36
Alignment explanation
Indices: 34857176--34857245 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
34857166 TTTCTTGGTC
34857176 GAGGGATCAAATA-TCCTGTAGCCCTTCTTACAGCCT
1 GAGGGATCAAATACT-CTGTAGCCCTTCTTACAGCCT
*
34857212 GAGGGATCAAATACTCTGTAGCCCTTCTTGCAGC
1 GAGGGATCAAATACTCTGTAGCCCTTCTTACAGC
34857246 TATTGTAGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (36 bp):
GAGGGATCAAATACTCTGTAGCCCTTCTTACAGCCT
Found at i:34868138 original size:13 final size:14
Alignment explanation
Indices: 34868120--34868148 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34868110 TTTAGTTGTA
34868120 TATAATTT-TAATT
1 TATAATTTATAATT
34868133 TATAATTTATAATT
1 TATAATTTATAATT
34868147 TA
1 TA
34868149 ATATAGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATAATTTATAATT
Found at i:34868140 original size:7 final size:7
Alignment explanation
Indices: 34868120--34868148 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
34868110 TTTAGTTGTA
34868120 TATAATT
1 TATAATT
34868127 T-TAATT
1 TATAATT
34868133 TATAATT
1 TATAATT
34868140 TATAATT
1 TATAATT
34868147 TA
1 TA
34868149 ATATAGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TATAATT
Found at i:34868527 original size:12 final size:12
Alignment explanation
Indices: 34868510--34868543 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
34868500 ATCAATGAGC
34868510 AAAATAAACTGA
1 AAAATAAACTGA
34868522 AAAATAAAAACTGA
1 AAAAT--AAACTGA
34868536 AAAATAAA
1 AAAATAAA
34868544 TATATGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.40
14 12 0.60
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAATAAACTGA
Found at i:34868553 original size:15 final size:14
Alignment explanation
Indices: 34868515--34868543 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34868505 TGAGCAAAAT
34868515 AAACTGAAAAATAA
1 AAACTGAAAAATAA
34868529 AAACTGAAAAATAA
1 AAACTGAAAAATAA
34868543 A
1 A
34868544 TATATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAACTGAAAAATAA
Found at i:34871065 original size:14 final size:15
Alignment explanation
Indices: 34871032--34871072 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
34871022 GCGATACAGT
*
34871032 AATTAAAATATAATA
1 AATTAAAATATAAGA
*
34871047 AATTAAAAT-TTAGA
1 AATTAAAATATAAGA
34871061 AATTAAAATATA
1 AATTAAAATATA
34871073 TAGATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
AATTAAAATATAAGA
Found at i:34872143 original size:4 final size:4
Alignment explanation
Indices: 34872134--34872163 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
34872124 AAAATTGAAT
34872134 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
34872164 AAGAGAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:34875029 original size:15 final size:15
Alignment explanation
Indices: 34874991--34875029 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
34874981 AATTATACTT
34874991 ATTTAATTA-ATAAA
1 ATTTAATTATATAAA
* *
34875005 ATATATTTATATAAA
1 ATTTAATTATATAAA
34875020 ATTTAATTAT
1 ATTTAATTAT
34875030 TTTATTGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTAATTATATAAA
Found at i:34881152 original size:33 final size:33
Alignment explanation
Indices: 34881067--34881145 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
34881057 GTCCACCATG
*
34881067 TACCCTTGATTCACATACCCAGGGTGAGACATA
1 TACCCTTGATTCACATACCCAGGATGAGACATA
*
34881100 TACCCTTGATTCGCATACCCAGGATGAGACATA
1 TACCCTTGATTCACATACCCAGGATGAGACATA
*
34881133 TAGCCTTGATTCA
1 TACCCTTGATTCA
34881146 TGTACCCCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (33 bp):
TACCCTTGATTCACATACCCAGGATGAGACATA
Found at i:34881428 original size:21 final size:18
Alignment explanation
Indices: 34881383--34881419 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34881373 GCGTCGGTGA
34881383 CTTTCTTCTCACCGCCGT
1 CTTTCTTCTCACCGCCGT
34881401 CTTTCTTCTCACCGCCGT
1 CTTTCTTCTCACCGCCGT
34881419 C
1 C
34881420 ATCTTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.46, G:0.11, T:0.38
Consensus pattern (18 bp):
CTTTCTTCTCACCGCCGT
Found at i:34891807 original size:31 final size:31
Alignment explanation
Indices: 34891770--34891868 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 31
34891760 AGGTTGAACT
* *
34891770 AAAATTTTCAAAATTTTTAGAGGG-TTTAATA
1 AAAATTTCCAAAATTTTT-GAGGGATCTAATA
*
34891801 AAAATTTCCAATATTTTTGAGGGATCTAAT-
1 AAAATTTCCAAAATTTTTGAGGGATCTAATA
* * **
34891831 AAAAGTTCTAAAAAATTTGAGGGA-CTTAATA
1 AAAATTTCCAAAATTTTTGAGGGATC-TAATA
*
34891862 AGAATTT
1 AAAATTT
34891869 ATAAAATAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
29 1 0.02
30 28 0.51
31 26 0.47
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.37
Consensus pattern (31 bp):
AAAATTTCCAAAATTTTTGAGGGATCTAATA
Found at i:34897614 original size:269 final size:269
Alignment explanation
Indices: 34897135--34898483 Score: 2698
Period size: 269 Copynumber: 5.0 Consensus size: 269
34897125 TTGTGTTTTA
34897135 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
1 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
34897200 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
66 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
34897265 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
131 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
34897330 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
196 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
34897395 TGCTATGCC
261 TGCTATGCC
34897404 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
1 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
34897469 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
66 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
34897534 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
131 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
34897599 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
196 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
34897664 TGCTATGCC
261 TGCTATGCC
34897673 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
1 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
34897738 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
66 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
34897803 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
131 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
34897868 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
196 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
34897933 TGCTATGCC
261 TGCTATGCC
34897942 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
1 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
34898007 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
66 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
34898072 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
131 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
34898137 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
196 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
34898202 TGCTATGCC
261 TGCTATGCC
34898211 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
1 AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
34898276 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
66 AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
34898341 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
131 AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
34898406 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
196 TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
34898471 TGCTATGCC
261 TGCTATGCC
34898480 AAAA
1 AAAA
34898484 TTACAGCTCC
Statistics
Matches: 1080, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
269 1080 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (269 bp):
AAAACTTCCCAATGATTTCTAACTCTAAAATATAAAGCAGCCCAAGTCAGAAGCAAAGGTGGGTG
AGTAGTAACATGGTGGAGAAGCGGTATCTCTAATAATTGGCTTATTTATTTCAGCCTACGCATCA
AAGAAATAGGTGTTGGGAAGCAACAAAGCCGAAACGCTGCTGTTATAGCCAAGAATTCATTTCAT
TAATTATTCATTGTTATAGTTGAAAAATCAAAAGAAATTAGAGGTTTTGATTATTGTAACAGCTA
TGCTATGCC
Found at i:34905480 original size:5 final size:5
Alignment explanation
Indices: 34905466--34905497 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
34905456 ATAATGCACA
*
34905466 TATAT TATAT CATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TA
34905498 AAACATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:34914044 original size:3 final size:3
Alignment explanation
Indices: 34914025--34914117 Score: 100
Period size: 3 Copynumber: 30.3 Consensus size: 3
34914015 TTTAGCAACT
34914025 TTA TTAA TTA GTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
34914072 TCT- TTA TTG TTC TTA TTA TTA TTA -TA TTCA TTA ATA TTA TTG TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
34914117 T
1 T
34914118 AGATATATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
2 3 0.04
3 64 0.83
4 10 0.13
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34917133 original size:2 final size:2
Alignment explanation
Indices: 34917128--34917155 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34917118 ACATGCGTTT
34917128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34917156 CTTATACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34917567 original size:44 final size:45
Alignment explanation
Indices: 34917495--34917592 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
34917485 AAGAGTACCC
* *
34917495 TTTT-TATTTATTTTTTTATTTTTATTTGCTTATATGTATTGTTA
1 TTTTGTATGTATTTTTTTATTTTTATTTGCTTATATATATTGTTA
* *
34917539 TTTTGTATGTATTTTTTTA-TTTTATTTGCTTCTATATGTTGTTA
1 TTTTGTATGTATTTTTTTATTTTTATTTGCTTATATATATTGTTA
34917583 TTTTGTATGT
1 TTTTGTATGT
34917593 CATTGATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 36 0.73
45 13 0.27
ACGTcount: A:0.16, C:0.03, G:0.10, T:0.70
Consensus pattern (45 bp):
TTTTGTATGTATTTTTTTATTTTTATTTGCTTATATATATTGTTA
Found at i:34917869 original size:108 final size:106
Alignment explanation
Indices: 34917680--34918013 Score: 398
Period size: 106 Copynumber: 3.1 Consensus size: 106
34917670 CACGCATATT
* * * * *
34917680 AATATTCTTTTAAAAGTTTCAAAGTAAGGAAATATTTTGCGTTTGGAAATTCAAGAAAGCGTGCC
1 AATATCCTTTTAAAA-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCC
34917745 CTAACGTGCTGGGTTTCGATTTCTCGTTCGACCAAAATAGCCA
65 CTAACGTGCTGGGTTTCGATTTCTCGTTCGACC-AAATAGCCA
* * * ** *
34917788 AATATCTTTTTTAAACTTTCAAAATTAGGCAATATTTCACGTTTGGAAAATCGAGAAAACGTGCC
1 AATATC-CTTTTAAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * * * *
34917853 CTAACGTGTTGGGTTTCGATTACTCGTTTGACCAAATAGTCG
65 CTAACGTGCTGGGTTTCGATTTCTCGTTCGACCAAATAGCCA
* ** * * ** * *
34917895 AATACCCTTTCGAAATTTCAAAATGAGGCAATGTTTTGTATTTGGAAATTCGAGAGAACGTACCC
1 AATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
*
34917960 TAACGTGCTGGATTTCGATTTCTCGTTCGACCAAATAGCCA
66 TAACGTGCTGGGTTTCGATTTCTCGTTCGACCAAATAGCCA
*
34918001 AATATCCTCTTAA
1 AATATCCTTTTAA
34918014 CTTTCAATCC
Statistics
Matches: 185, Mismatches: 40, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
106 90 0.49
107 12 0.06
108 76 0.41
109 7 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (106 bp):
AATATCCTTTTAAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
TAACGTGCTGGGTTTCGATTTCTCGTTCGACCAAATAGCCA
Found at i:34924469 original size:40 final size:40
Alignment explanation
Indices: 34924401--34924534 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
34924391 ACCAGTTTAT
* * *
34924401 CACCTAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGTTAATCCGAAGTAATAAATTGA
* * *
34924441 CACCCAGTGTCTCATCGGTTAAACCGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGGTTAATCCGAAGTAATAAATTGA
* *
34924478 CACCCAATGCCTCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCG-GTTAATCCGAAGTAATAAATTGA
*
34924519 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
34924535 AAGTCGAAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
37 22 0.29
38 10 0.13
40 24 0.31
41 21 0.27
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGTTAATCCGAAGTAATAAATTGA
Found at i:34924523 original size:41 final size:40
Alignment explanation
Indices: 34924401--34924534 Score: 150
Period size: 37 Copynumber: 3.4 Consensus size: 40
34924391 ACCAGTTTAT
* *
34924401 CACCTAGTGCCTCATCGGA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATC-GATTAATCCGAAGTAATAAATTGA
* * * *
34924441 CACCCAGTGTCTCATCGGTTAAACCGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGATTAATCCGAAGTAATAAATTGA
*
34924478 CACCCAATGCCTCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCG-ATTAATCCGAAGTAATAAATTGA
*
34924519 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
34924535 AAGTCGAAGT
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 22 0.29
38 10 0.13
39 1 0.01
40 22 0.29
41 21 0.28
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGATTAATCCGAAGTAATAAATTGA
Found at i:34925065 original size:18 final size:19
Alignment explanation
Indices: 34925039--34925074 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34925029 TAGACTATAT
*
34925039 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
34925057 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
34925075 AATTTTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:34925369 original size:5 final size:5
Alignment explanation
Indices: 34925352--34925421 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
34925342 TTTCTCCTTC
* * * * *
34925352 TTTCT TTTTT TTTCT TTTC- TTTCT TTCCT TCTCT GTTTCG TTTCG TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TTTCT TTTCT
34925402 TTCTCT TTCTCTT TTTCT TT
1 TT-TCT TT-TC-T TTTCT TT
34925422 ATTATTATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
4 4 0.08
5 33 0.62
6 13 0.25
7 3 0.06
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTCT
Found at i:34925404 original size:26 final size:27
Alignment explanation
Indices: 34925362--34925418 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
34925352 TTTCTTTTTT
*
34925362 TTTCTTTTCTTTCTTTC-C-TTCTCTG
1 TTTCGTTTCTTTCTTTCTCTTTCTCTG
*
34925387 TTTCGTTTCGTTTCTTTCTCTTTCTCTT
1 TTTCGTTTC-TTTCTTTCTCTTTCTCTG
34925415 TTTC
1 TTTC
34925419 TTTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 8 0.30
27 1 0.04
28 10 0.37
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.68
Consensus pattern (27 bp):
TTTCGTTTCTTTCTTTCTCTTTCTCTG
Found at i:34925410 original size:10 final size:9
Alignment explanation
Indices: 34925349--34925421 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
34925339 ATTTTTCTCC
34925349 TTCTTTCTTT
1 TTCTTTC-TT
*
34925359 TTTTTTCTT
1 TTCTTTCTT
34925368 TTCTTTCTT
1 TTCTTTCTT
*
34925377 TCCTTCTCTGT
1 TTCTT-TCT-T
*
34925388 TTCGTTTCGT
1 TTC-TTTCTT
34925398 TTCTTTCTCT
1 TTCTTTCT-T
*
34925408 TTCTCT-TT
1 TTCTTTCTT
34925416 TTCTTT
1 TTCTTT
34925422 ATTATTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.12
9 19 0.37
10 19 0.37
11 5 0.10
12 2 0.04
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:34925479 original size:36 final size:38
Alignment explanation
Indices: 34925432--34925517 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 38
34925422 ATTATTATAA
* *
34925432 TATAATAATATATACT-TA-ACTTTTAAGTTTTAATA-T
1 TATAATAATATATACTATATA-TTTTAAATTTAAATATT
34925468 TATAATAATATA-A-TATATATTTTAAATTTAAATATT
1 TATAATAATATATACTATATATTTTAAATTTAAATATT
34925504 TATAAT-ATATATAC
1 TATAATAATATATAC
34925518 ACTTGTGCCG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
34 1 0.02
35 21 0.49
36 21 0.49
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
TATAATAATATATACTATATATTTTAAATTTAAATATT
Found at i:34931998 original size:2 final size:2
Alignment explanation
Indices: 34931993--34932038 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
34931983 TCTCTTTATT
*
34931993 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTC TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
34932035 TA TA
1 TA TA
34932039 ATTGTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 38 0.95
3 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34933593 original size:9 final size:9
Alignment explanation
Indices: 34933579--34933615 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34933569 TATAGTTTGA
34933579 TATTCGAAT
1 TATTCGAAT
34933588 TATTCGAAT
1 TATTCGAAT
*
34933597 TATTCGAGT
1 TATTCGAAT
34933606 TATTCGAAT
1 TATTCGAAT
34933615 T
1 T
34933616 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34933686 original size:9 final size:9
Alignment explanation
Indices: 34933669--34933699 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34933659 TCGAGTTGAT
34933669 TCGAATAAC
1 TCGAATAAC
*
34933678 TCGATTAAC
1 TCGAATAAC
34933687 TCGAATAAC
1 TCGAATAAC
34933696 TCGA
1 TCGA
34933700 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:34937740 original size:38 final size:38
Alignment explanation
Indices: 34937695--34937913 Score: 438
Period size: 38 Copynumber: 5.8 Consensus size: 38
34937685 TTTTGATTTT
34937695 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
34937733 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
34937771 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
34937809 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
34937847 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
34937885 TGCTGTTAATGGTGTTCTGATTTTGATTT
1 TGCTGTTAATGGTGTTCTGATTTTGATTT
34937914 AAATTGTCAG
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 181 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.53
Consensus pattern (38 bp):
TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
Found at i:34937772 original size:29 final size:30
Alignment explanation
Indices: 34937682--34937739 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
34937672 ATGTTGGTTG
*
34937682 TGATTTTGATTTTTGCTGTTAATGGTGTTC
1 TGATTTTGATTTTTGCTGTTAATGCTGTTC
34937712 TGATTTTGA-TTTTGCTGTTAATGCTGTT
1 TGATTTTGATTTTTGCTGTTAATGCTGTT
34937740 AATGGTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.14, C:0.07, G:0.22, T:0.57
Consensus pattern (30 bp):
TGATTTTGATTTTTGCTGTTAATGCTGTTC
Found at i:34939249 original size:16 final size:16
Alignment explanation
Indices: 34939224--34939257 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34939214 ATATAAATTC
34939224 AATAACAATTAATTTT
1 AATAACAATTAATTTT
* *
34939240 AATAATAATTAGTTTT
1 AATAACAATTAATTTT
34939256 AA
1 AA
34939258 CTTTTAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:34939525 original size:3 final size:3
Alignment explanation
Indices: 34939517--34939560 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
34939507 CATTTATTCT
34939517 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34939561 TTGGTTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34943280 original size:20 final size:20
Alignment explanation
Indices: 34943247--34943290 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
34943237 AATAACTGAA
* * * *
34943247 TTAAATTATTATATTATATT
1 TTAAAATATAATATAATAAT
34943267 TTAAAATATAATATAATAAT
1 TTAAAATATAATATAATAAT
34943287 TTAA
1 TTAA
34943291 TTCAGTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATATAATATAATAAT
Found at i:34943297 original size:108 final size:108
Alignment explanation
Indices: 34943146--34943439 Score: 579
Period size: 108 Copynumber: 2.7 Consensus size: 108
34943136 TTTTTATTTT
34943146 TTATAATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATT
1 TTAT-ATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATT
34943211 TAAATTTAAATTTATTAATTAAGTTGAATAACTGAATTAAATTA
65 TAAATTTAAATTTATTAATTAAGTTGAATAACTGAATTAAATTA
34943255 TTATATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATTT
1 TTATATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATTT
34943320 AAATTTAAATTTATTAATTAAGTTGAATAACTGAATTAAATTA
66 AAATTTAAATTTATTAATTAAGTTGAATAACTGAATTAAATTA
34943363 TTATATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATTT
1 TTATATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATTT
34943428 AAATTTAAATTT
66 AAATTTAAATTT
34943440 GCTTATAAAT
Statistics
Matches: 185, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 181 0.98
109 4 0.02
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (108 bp):
TTATATTATATTTTAAAATATAATATAATAATTTAATTCAGTTATTCAACTTAATTAATAAATTT
AAATTTAAATTTATTAATTAAGTTGAATAACTGAATTAAATTA
Found at i:34943388 original size:20 final size:20
Alignment explanation
Indices: 34943355--34943398 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
34943345 AATAACTGAA
* * * *
34943355 TTAAATTATTATATTATATT
1 TTAAAATATAATATAATAAT
34943375 TTAAAATATAATATAATAAT
1 TTAAAATATAATATAATAAT
34943395 TTAA
1 TTAA
34943399 TTCAGTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATATAATATAATAAT
Found at i:34946928 original size:12 final size:12
Alignment explanation
Indices: 34946913--34946956 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
34946903 AACAAATCCT
34946913 CTCTCAAATTTC
1 CTCTCAAATTTC
34946925 CTCTC-AATTTC
1 CTCTCAAATTTC
34946936 CT-TCTAAATTT-
1 CTCTC-AAATTTC
34946947 CTCTCAAATT
1 CTCTCAAATT
34946957 CATATTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.07
11 15 0.52
12 12 0.41
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:34946953 original size:22 final size:25
Alignment explanation
Indices: 34946909--34946953 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
34946899 CACAAACAAA
34946909 TCCTCTCTCAAATTTCCTCTCAATT
1 TCCTCTCTCAAATTTCCTCTCAATT
34946934 TCCT-TCT-AAATTT-CTCTCAA
1 TCCTCTCTCAAATTTCCTCTCAA
34946954 ATTCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (25 bp):
TCCTCTCTCAAATTTCCTCTCAATT
Found at i:34949070 original size:21 final size:21
Alignment explanation
Indices: 34949046--34949093 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
34949036 GATGCCCTAT
*
34949046 CGGAAGAACCAGAATCC-CCGC
1 CGGAAGAACCACAA-CCGCCGC
*
34949067 CGGAGGAACCACAACCGCCGC
1 CGGAAGAACCACAACCGCCGC
34949088 CGGAAG
1 CGGAAG
34949094 CTGGACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.31, C:0.38, G:0.29, T:0.02
Consensus pattern (21 bp):
CGGAAGAACCACAACCGCCGC
Found at i:34949328 original size:21 final size:21
Alignment explanation
Indices: 34949303--34949449 Score: 143
Period size: 21 Copynumber: 6.9 Consensus size: 21
34949293 TAACCCTAAT
34949303 CCTAACCCTTAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
34949324 TCTAACCCTTAAATTAAAAGC
1 CCTAACCCTTAACTTAAAAAC
*
34949345 GCTAACCCTTAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
34949366 ACCAAACCCTAAACCTAAAAAC
1 -CCTAACCCTTAACTTAAAAAC
*
34949388 CCTAAACCTTAAACTTAAAAAC
1 CCTAACCCTT-AACTTAAAAAC
* * * *
34949410 ATCAAACCCTAAACCT-AAAAC
1 -CCTAACCCTTAACTTAAAAAC
*
34949431 CCTAACCTTTAACTTAAAA
1 CCTAACCCTTAACTTAAAA
34949450 CAACAAACCC
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
20 10 0.10
21 51 0.52
22 31 0.32
23 6 0.06
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (21 bp):
CCTAACCCTTAACTTAAAAAC
Found at i:34949351 original size:42 final size:42
Alignment explanation
Indices: 34949303--34949471 Score: 218
Period size: 44 Copynumber: 4.0 Consensus size: 42
34949293 TAACCCTAAT
* *
34949303 CCTAACCCTTAACTTAAAAAC-TCTAACCCTTAAA-TTAAAAGC
1 CCTAACCCTTAACTTAAAAACATCAAACCC-TAAACCTAAAA-C
* *
34949345 GCTAACCCTTAACTTAAAAACACCAAACCCTAAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAACATCAAACCCTAAACCT-AAAAC
*
34949388 CCTAAACCTTAAACTTAAAAACATCAAACCCTAAACCTAAAAC
1 CCTAACCCTT-AACTTAAAAACATCAAACCCTAAACCTAAAAC
* *
34949431 CCTAACCTTTAACTT-AAAACAACAAACCCTAAACCTAAAAC
1 CCTAACCCTTAACTTAAAAACATCAAACCCTAAACCTAAAAC
34949472 AGTAAACTCT
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
41 25 0.22
42 29 0.26
43 29 0.26
44 30 0.27
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (42 bp):
CCTAACCCTTAACTTAAAAACATCAAACCCTAAACCTAAAAC
Found at i:34949478 original size:21 final size:21
Alignment explanation
Indices: 34949361--34949506 Score: 109
Period size: 22 Copynumber: 6.9 Consensus size: 21
34949351 CCTTAACTTA
*
34949361 AAAACACCAAACCCTAAACCT
1 AAAACACTAAACCCTAAACCT
* * *
34949382 AAAAACCCTAAACCTTAAACTT
1 -AAAACACTAAACCCTAAACCT
34949404 AAAA-ACATCAAACCCTAAACCT
1 AAAACAC-T-AAACCCTAAACCT
* * * *
34949426 AAAACCCT-AACCTTTAACTT
1 AAAACACTAAACCCTAAACCT
34949446 AAAACAAC-AAACCCTAAACCT
1 AAAAC-ACTAAACCCTAAACCT
* * * *
34949467 AAAACAGTAAACTCTACACTT
1 AAAACACTAAACCCTAAACCT
*
34949488 AAAACCCTAAAACCCTAAA
1 AAAACACT-AAACCCTAAA
34949507 ACCTTAACTT
Statistics
Matches: 94, Mismatches: 23, Indels: 14
0.72 0.18 0.11
Matches are distributed among these distances:
20 16 0.17
21 36 0.38
22 41 0.44
23 1 0.01
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.17
Consensus pattern (21 bp):
AAAACACTAAACCCTAAACCT
Found at i:34949607 original size:21 final size:19
Alignment explanation
Indices: 34949558--34949641 Score: 55
Period size: 21 Copynumber: 4.1 Consensus size: 19
34949548 TTAAAACACT
34949558 AACC-AACCCTTAAATTAA
1 AACCAAACCCTTAAATTAA
*
34949576 AACCGATAACCCTTAATTTAAAA
1 AACC-A-AACCCTTAAATT--AA
* *
34949599 AACCAAACCCTAAACATAAA
1 AACCAAACCCTTAA-ATTAA
34949619 AACCTTAAA-CCTTAAACTTAA
1 AACC--AAACCCTTAAA-TTAA
34949640 AA
1 AA
34949642 ACCCCAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.08
20 7 0.14
21 29 0.57
22 5 0.10
23 6 0.12
ACGTcount: A:0.52, C:0.25, G:0.01, T:0.21
Consensus pattern (19 bp):
AACCAAACCCTTAAATTAA
Found at i:34949695 original size:22 final size:22
Alignment explanation
Indices: 34949594--34949693 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
34949584 ACCCTTAATT
* * *
34949594 TAAAAAACC-AAACCCTAAACA
1 TAAAAACCCTAAACCGTAAACC
* * *
34949615 TAAAAACCTTAAACCTTAAACT
1 TAAAAACCCTAAACCGTAAACC
* ***
34949637 TAAAAACCCCAAATTTTAAACC
1 TAAAAACCCTAAACCGTAAACC
34949659 TAAAAACCCTAAACCGTAAACC
1 TAAAAACCCTAAACCGTAAACC
34949681 TAAAAAACCCTAA
1 T-AAAAACCCTAA
34949694 CCATTAACTT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 7 0.11
22 46 0.72
23 11 0.17
ACGTcount: A:0.54, C:0.27, G:0.01, T:0.18
Consensus pattern (22 bp):
TAAAAACCCTAAACCGTAAACC
Found at i:34949708 original size:23 final size:23
Alignment explanation
Indices: 34949594--34949708 Score: 80
Period size: 22 Copynumber: 5.3 Consensus size: 23
34949584 ACCCTTAATT
* *
34949594 TAAAAAA-CC-AAACCCTAAACA
1 TAAAAAACCCTAAACCATAAACC
* *
34949615 TAAA-AACCTTAAACCTTAAA-C
1 TAAAAAACCCTAAACCATAAACC
* * ***
34949636 TTAAAAACCCCAAATTTTAAACC
1 TAAAAAACCCTAAACCATAAACC
*
34949659 T-AAAAACCCTAAACCGTAAACC
1 TAAAAAACCCTAAACCATAAACC
* *
34949681 TAAAAAACCCT-AACCATTAACT
1 TAAAAAACCCTAAACCATAAACC
34949703 TAAAAA
1 TAAAAA
34949709 CTTTAAACCT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 8 0.11
22 53 0.72
23 11 0.15
ACGTcount: A:0.54, C:0.26, G:0.01, T:0.19
Consensus pattern (23 bp):
TAAAAAACCCTAAACCATAAACC
Found at i:34949714 original size:59 final size:61
Alignment explanation
Indices: 34949651--34949766 Score: 193
Period size: 59 Copynumber: 1.9 Consensus size: 61
34949641 AACCCCAAAT
*
34949651 TTTAAACCTAAAAACCCTAAACCGTAAACCTAAAAAACCCT-AACCAT-TAA-CTTAAAAAC
1 TTTAAACCTAAAAACCCTAAACCCTAAACCT-AAAAACCCTAAACCATATAACCTTAAAAAC
34949710 TTTAAACCTAAAAACCCTAAACCCTAAACCTAAAAACCCTAAACCATATAACCTTAA
1 TTTAAACCTAAAAACCCTAAACCCTAAACCTAAAAACCCTAAACCATATAACCTTAA
34949767 CTTTAAAATC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
58 9 0.17
59 36 0.68
60 3 0.06
61 5 0.09
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.21
Consensus pattern (61 bp):
TTTAAACCTAAAAACCCTAAACCCTAAACCTAAAAACCCTAAACCATATAACCTTAAAAAC
Found at i:34949731 original size:22 final size:22
Alignment explanation
Indices: 34949712--34950225 Score: 339
Period size: 22 Copynumber: 24.0 Consensus size: 22
34949702 TTAAAAACTT
34949712 TAAACCTAAAAACCCTAAACCC
1 TAAACCTAAAAACCCTAAACCC
*
34949734 TAAACCTAAAAACCCTAAACCA
1 TAAACCTAAAAACCCTAAACCC
* ** *
34949756 TATAACCT--TAACTTTAAAATCC
1 TA-AACCTAAAAACCCT-AAACCC
* ** *
34949778 TAACCCT---AATTCT-AACCA
1 TAAACCTAAAAACCCTAAACCC
* * *
34949796 TTAACATAAAAA-CCTTAACCC
1 TAAACCTAAAAACCCTAAACCC
*
34949817 TAAACCTAAAAACCCTAAGCCC
1 TAAACCTAAAAACCCTAAACCC
* *
34949839 TAAACTTAAAAAACCC-AAACTC
1 TAAACCT-AAAAACCCTAAACCC
*
34949861 TAAACCTAAAAACCCT-AACCT
1 TAAACCTAAAAACCCTAAACCC
* *
34949882 TTAACTTAAAAACCC-AAACCC
1 TAAACCTAAAAACCCTAAACCC
* * *
34949903 TAAACTTAAAAACACTAAACTC
1 TAAACCTAAAAACCCTAAACCC
* *
34949925 TAAACTTAAAAACCATAAACCC
1 TAAACCTAAAAACCCTAAACCC
*
34949947 TAAACCTAAAAACCCTAAACTC
1 TAAACCTAAAAACCCTAAACCC
* * *
34949969 TAAACTTAAAAAACCCCAAACCT
1 TAAACCT-AAAAACCCTAAACCC
* ** **
34949992 TAAAACT-TTAACTTTAAAGCCC
1 TAAACCTAAAAACCCTAAA-CCC
* **
34950014 TAATCCT---AATTCT-AACCC
1 TAAACCTAAAAACCCTAAACCC
* * * *
34950032 TTAACTTAAAA-CCCTAAC-TC
1 TAAACCTAAAAACCCTAAACCC
* *
34950052 TAAACCTTAAAACCCTAAACCT
1 TAAACCTAAAAACCCTAAACCC
*
34950074 TAAACTTAAAAACCC-AAACCC
1 TAAACCTAAAAACCCTAAACCC
*
34950095 TAAACCTAAAAACCCT-AACTC
1 TAAACCTAAAAACCCTAAACCC
* * *
34950116 TTAACTTAAAAACCCTAAACCT
1 TAAACCTAAAAACCCTAAACCC
* **
34950138 TAAATCTAAAAACTATAAACCC
1 TAAACCTAAAAACCCTAAACCC
* *
34950160 TAAACTTAAAAACCAC-AAACCA
1 TAAACCTAAAAACC-CTAAACCC
* *
34950182 TAAACTTAAAAACACTAAACCC
1 TAAACCTAAAAACCCTAAACCC
* *
34950204 TAAACTTAAAAACCTTAAACCC
1 TAAACCTAAAAACCCTAAACCC
34950226 AAAAACCTTA
Statistics
Matches: 378, Mismatches: 91, Indels: 46
0.73 0.18 0.09
Matches are distributed among these distances:
18 14 0.04
19 2 0.01
20 21 0.06
21 117 0.31
22 194 0.51
23 30 0.08
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCTAAAAACCCTAAACCC
Found at i:34949753 original size:37 final size:37
Alignment explanation
Indices: 34949669--34949754 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
34949659 TAAAAACCCT
* * *
34949669 AAACCGTAAACCTAAAAAACCCTAACCATTAACTTAA
1 AAACCCTAAACCTAAAAAACCCTAACCATAAACCTAA
** *
34949706 AAACTTTAAACCT-AAAAACCCTAAACCCTAAACCTAA
1 AAACCCTAAACCTAAAAAACCCT-AACCATAAACCTAA
34949743 AAACCCTAAACC
1 AAACCCTAAACC
34949755 ATATAACCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 9 0.22
37 32 0.78
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (37 bp):
AAACCCTAAACCTAAAAAACCCTAACCATAAACCTAA
Found at i:34949814 original size:21 final size:21
Alignment explanation
Indices: 34949790--34949960 Score: 76
Period size: 21 Copynumber: 8.0 Consensus size: 21
34949780 ACCCTAATTC
*
34949790 TAACCATTAACATAAAAACCT
1 TAACCATAAACATAAAAACCT
* * *
34949811 TAACCCTAAACCTAAAAACCC
1 TAACCATAAACATAAAAACCT
* * *
34949832 TAAGCCCTAAACTTAAAAAACCC
1 TAA-CCATAAACAT-AAAAACCT
* * *
34949855 AAACTC-TAAACCTAAAAACCC
1 TAAC-CATAAACATAAAAACCT
* * * *
34949876 TAACCTTTAACTTAAAAACCC
1 TAACCATAAACATAAAAACCT
* * *
34949897 AAACCCTAAACTTAAAAACACT
1 TAACCATAAACATAAAAAC-CT
* *
34949919 AAACTC-TAAACTTAAAAACCAT
1 TAAC-CATAAACATAAAAACC-T
* * *
34949941 AAACCCTAAACCTAAAAACC
1 TAACCATAAACATAAAAACC
34949961 CTAAACTCTA
Statistics
Matches: 127, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.01
21 62 0.49
22 52 0.41
23 12 0.09
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.19
Consensus pattern (21 bp):
TAACCATAAACATAAAAACCT
Found at i:34949953 original size:235 final size:234
Alignment explanation
Indices: 34949712--34950254 Score: 772
Period size: 235 Copynumber: 2.3 Consensus size: 234
34949702 TTAAAAACTT
* * *
34949712 TAAACCTAAAAACCCTAAACCCTAAACCTAAAAACCCTAAACCATATAACCTTAACTTTAAAATC
1 TAAACCTAAAAACCCTAAACCCTAAACTTAAAAACCCTAAACCATAAAACCTTAACTTTAAAACC
* *
34949777 CTAACCCTAATTCTAACCATTAACATAAAAACCTTAACCCTAAACCTAAAAACCCTAAGCCCTAA
66 CTAACCCTAATTCTAACCATTAAC-TAAAAACCCTAACCCTAAACCTAAAAACCCTAAACCCTAA
*
34949842 ACTTAAAAAACCCAAACTCTAAACCTAAAAACCCTAAC-CTTTAACTTAAAAACCC-AAACCCTA
130 ACTT-AAAAACCCAAACCCTAAACCTAAAAACCCTAACTC-TTAACTTAAAAACCCTAAACCCTA
* * *
34949905 AA-CTTAAAAAC-ACTAAACTCTAAACTTAAAAACCATAAACCC
193 AATC-TAAAAACTA-TAAACCCTAAACTTAAAAACCACAAACCA
* * * * *
34949947 TAAACCTAAAAACCCTAAACTCTAAACTTAAAAAACCCCAAACCTTAAAACTTTAACTTTAAAGC
1 TAAACCTAAAAACCCTAAACCCTAAACTT-AAAAACCCTAAACCATAAAACCTTAACTTTAAAAC
* * * * * *
34950012 CCTAATCCTAATTCTAACCCTTAACTTAAAACCCTAACTCTAAACCTTAAAACCCTAAACCTTAA
65 CCTAACCCTAATTCTAACCATTAACTAAAAACCCTAACCCTAAACCTAAAAACCCTAAACCCTAA
*
34950077 ACTTAAAAACCCAAACCCTAAACCTAAAAACCCTAACTCTTAACTTAAAAACCCTAAACCTTAAA
130 ACTTAAAAACCCAAACCCTAAACCTAAAAACCCTAACTCTTAACTTAAAAACCCTAAACCCTAAA
34950142 TCTAAAAACTATAAACCCTAAACTTAAAAACCACAAACCA
195 TCTAAAAACTATAAACCCTAAACTTAAAAACCACAAACCA
* * *
34950182 TAAACTTAAAAACACTAAACCCTAAACTTAAAAACCTTAAACCCA-AAAACCTTAACTTTAAAAC
1 TAAACCTAAAAACCCTAAACCCTAAACTTAAAAACCCTAAA-CCATAAAACCTTAACTTTAAAAC
34950246 CCTAACCCT
65 CCTAACCCT
34950255 TAAGTTAAAT
Statistics
Matches: 272, Mismatches: 30, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
234 82 0.30
235 136 0.50
236 54 0.20
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (234 bp):
TAAACCTAAAAACCCTAAACCCTAAACTTAAAAACCCTAAACCATAAAACCTTAACTTTAAAACC
CTAACCCTAATTCTAACCATTAACTAAAAACCCTAACCCTAAACCTAAAAACCCTAAACCCTAAA
CTTAAAAACCCAAACCCTAAACCTAAAAACCCTAACTCTTAACTTAAAAACCCTAAACCCTAAAT
CTAAAAACTATAAACCCTAAACTTAAAAACCACAAACCA
Found at i:34949959 original size:15 final size:16
Alignment explanation
Indices: 34949941--34949972 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
34949931 TAAAAACCAT
34949941 AAACCCTAAAC-CTAA
1 AAACCCTAAACTCTAA
34949956 AAACCCTAAACTCTAA
1 AAACCCTAAACTCTAA
34949972 A
1 A
34949973 CTTAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (16 bp):
AAACCCTAAACTCTAA
Found at i:34950179 original size:29 final size:29
Alignment explanation
Indices: 34950125--34950186 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
34950115 CTTAACTTAA
* * *
34950125 AAACCCTAAACCTTAAATCTAAAAACTAT
1 AAACCCTAAACCTTAAAACCAAAAACCAT
*
34950154 AAACCCTAAA-CTTAAAAACCACAAACCAT
1 AAACCCTAAACCTT-AAAACCAAAAACCAT
34950183 AAAC
1 AAAC
34950187 TTAAAAACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (29 bp):
AAACCCTAAACCTTAAAACCAAAAACCAT
Found at i:34950216 original size:15 final size:15
Alignment explanation
Indices: 34950198--34950250 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
34950188 TAAAAACACT
34950198 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
* **
34950213 AAACCTTAAACCCAA
1 AAACCCTAAACTTAA
* *
34950228 AAA-CCTTAACTTTA
1 AAACCCTAAACTTAA
34950242 AAACCCTAA
1 AAACCCTAA
34950251 CCCTTAAGTT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAACTTAA
Found at i:34950223 original size:29 final size:29
Alignment explanation
Indices: 34950191--34950246 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
34950181 ATAAACTTAA
* *
34950191 AAACACTAAACCCTAAACTTAAAAACCTT
1 AAACACAAAAACCTAAACTTAAAAACCTT
* * *
34950220 AAACCCAAAAACCTTAACTTTAAAACC
1 AAACACAAAAACCTAAACTTAAAAACC
34950247 CTAACCCTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (29 bp):
AAACACAAAAACCTAAACTTAAAAACCTT
Found at i:34950368 original size:21 final size:21
Alignment explanation
Indices: 34950344--34951109 Score: 253
Period size: 22 Copynumber: 36.2 Consensus size: 21
34950334 TAACCCTAAT
* *
34950344 CCTAACCTTTAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
*
34950365 CCTAACCCTTAAA-TTAAAAAT
1 CCTAACCC-TAAACTTAAAAAC
* *
34950386 GCTAACCCTTAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
* * *
34950407 CCCAAGCCTTAAACCT-AAAAC
1 CCTAA-CCCTAAACTTAAAAAC
*
34950428 CATAAACCCTAAACTTAAAAAC
1 CCT-AACCCTAAACTTAAAAAC
* * *
34950450 ACCAAACCTTAAACATAAAAAC
1 -CCTAACCCTAAACTTAAAAAC
*
34950472 CCTAAACCCTAAACCT-AAAAC
1 CCT-AACCCTAAACTTAAAAAC
* *
34950493 ACCAAACACTAAACTT-AAAAC
1 -CCTAACCCTAAACTTAAAAAC
*
34950514 CCTAACCCTTAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
* * *
34950535 CACAAACCCTAAACATAAAACC
1 C-CTAACCCTAAACTTAAAAAC
*
34950557 CCTAACCTTAAACTT-AAAAC
1 CCTAACCCTAAACTTAAAAAC
*
34950577 CCTAAACACTAAAATCTTAACTTTAAAAC
1 CCT-AACCCT-AAA-CTT-A----AAAAC
* * * *
34950606 ACTAACACTAACCCT---AAC
1 CCTAACCCTAAACTTAAAAAC
34950624 CCTTAA--CT-----TAAAA-C
1 CC-TAACCCTAAACTTAAAAAC
*
34950638 ACTAACCCTTAAA-TTAAAAAC
1 CCTAACCC-TAAACTTAAAAAC
* * *
34950659 GCTAACCCTTAACTTAAAAAAA
1 CCTAACCCTAAACTT-AAAAAC
* * *
34950681 CCAAACTCTAAACCTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
*
34950702 CCTAAACCTTAAACTTAAAAAC
1 CCT-AACCCTAAACTTAAAAAC
* * *
34950724 TCTAAACCTTAAACCTAAAAAC
1 CCT-AACCCTAAACTTAAAAAC
* *
34950746 CTTAAACCCTAAACCTAAAAAAC
1 CCT-AACCCTAAA-CTTAAAAAC
* * *
34950769 TCTAACCATTAACTTAAAAACC
1 CCTAACCCTAAACTTAAAAA-C
* *
34950791 CCAAACCCCAAACCTT--AAA-
1 CCTAACCCTAAA-CTTAAAAAC
* *
34950810 CCTAAAAACTCTAAACTT-TAAAC
1 CCT---AACCCTAAACTTAAAAAC
34950833 CCT-A-----AACTT-AAAAC
1 CCTAACCCTAAACTTAAAAAC
*
34950847 CCTAAATCCTAAACTTAAAAAC
1 CCT-AACCCTAAACTTAAAAAC
*
34950869 CACAAACCCTAAAGACTTAACTTTAAAAC
1 C-CTAACCCT-AA-ACTT-A----AAAAC
* **
34950898 CATAACCCT-AA-TT-CTAAC
1 CCTAACCCTAAACTTAAAAAC
34950916 CCTTAA--CT-----TAAAAAC
1 CC-TAACCCTAAACTTAAAAAC
* * *
34950931 AC-AAGCCTTAAACCTAAAAAC
1 CCTAA-CCCTAAACTTAAAAAC
*
34950952 CCTAAACCCTAAACTTAAAAAAA
1 CCT-AACCCTAAACTT-AAAAAC
*
34950975 CCTAAACCCTAACCTTAAAAA-
1 CCT-AACCCTAAACTTAAAAAC
* *
34950996 CCTAGCCCTTAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
* * *
34951017 CATAAACCTTAAACTTAAAAAT
1 CCT-AACCCTAAACTTAAAAAC
** *
34951039 TATAAACCCTAAACTTAAAAGC
1 CCT-AACCCTAAACTTAAAAAC
*
34951061 CACAAACCCTAAACTTAAAAAC
1 C-CTAACCCTAAACTTAAAAAC
* *
34951083 CTTAAACCCTAAACTTAAAACC
1 CCT-AACCCTAAACTTAAAAAC
34951105 CCTAA
1 CCTAA
34951110 ATCTTAAAAC
Statistics
Matches: 557, Mismatches: 113, Indels: 150
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.00
13 5 0.01
14 15 0.03
15 6 0.01
16 3 0.01
17 4 0.01
18 8 0.01
19 9 0.02
20 44 0.08
21 138 0.25
22 243 0.44
23 43 0.08
24 6 0.01
25 2 0.00
26 3 0.01
27 2 0.00
28 12 0.02
29 13 0.02
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (21 bp):
CCTAACCCTAAACTTAAAAAC
Found at i:34950534 original size:42 final size:41
Alignment explanation
Indices: 34950344--34950797 Score: 239
Period size: 43 Copynumber: 10.7 Consensus size: 41
34950334 TAACCCTAAT
* * *
34950344 CCTAACCTTTAACTTAAAAACCCTAACCCTTAAA-TTAAAAAT
1 CCTAACCCTTAACTTAAAAACCC-AAACCTTAAACTT-AAAAC
* * *
34950386 GCTAACCCTTAACTTAAAAACCCCAAGCCTTAAACCTAAAAC
1 CCTAACCCTTAACTTAAAAA-CCCAAACCTTAAACTTAAAAC
* * *
34950428 CATAAACCCTAAACTTAAAAACACCAAACCTTAAACATAAAAAC
1 CCT-AACCCTTAACTTAAAAAC-CCAAACCTTAAAC-TTAAAAC
* *
34950472 CCTAAACCCTAAACCT-AAAACACCAAACAC-TAAACTTAAAAC
1 CCT-AACCCTTAACTTAAAAAC-CCAAAC-CTTAAACTTAAAAC
* *
34950514 CCTAACCCTTAACTTAAAAACCACAAACCCTAAACATAAAACC
1 CCTAACCCTTAACTTAAAAACC-CAAACCTTAAACTTAAAA-C
*
34950557 CCTAA-CCTTAAACTT-AAAACCCTAAACACTAAAATCTT--AAC
1 CCTAACCCTT-AACTTAAAAACCC-AAAC-CTTAAA-CTTAAAAC
** * ** *
34950598 TTTAAAACAC-TAAC--ACTAACCCTAACCCTT-AACTTAAAAC
1 CCT--AACCCTTAACTTAAAAACCC-AAACCTTAAACTTAAAAC
* * * * *
34950638 ACTAACCCTTAAATTAAAAACGCTAACCCTT-AACTTAAAAAAA
1 CCTAACCCTTAACTTAAAAAC-CCAAACCTTAAACTT--AAAAC
* * * *
34950681 CCAAACTCTAAACCTAAAAACCCTAAACCTTAAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAACCC-AAACCTTAAACTT-AAAAC
* * * * * *
34950724 TCTAAACCTTAAACCTAAAAACCTTAAACCCTAAACCTAAAAAAC
1 CCTAACCCTT-AACTTAAAAACC-CAAACCTTAAA-CT-TAAAAC
* *
34950769 TCTAACCATTAACTTAAAAACCCCAAACC
1 CCTAACCCTTAACTTAAAAA-CCCAAACC
34950798 CCAAACCTTA
Statistics
Matches: 323, Mismatches: 56, Indels: 64
0.73 0.13 0.14
Matches are distributed among these distances:
38 7 0.02
39 5 0.02
40 6 0.02
41 40 0.12
42 83 0.26
43 102 0.32
44 63 0.20
45 17 0.05
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (41 bp):
CCTAACCCTTAACTTAAAAACCCAAACCTTAAACTTAAAAC
Found at i:34950720 original size:6 final size:7
Alignment explanation
Indices: 34950698--34950761 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
34950688 CTAAACCTAA
*
34950698 AAACCCT
1 AAACCTT
34950705 AAACCTT
1 AAACCTT
34950712 AAA-CTT
1 AAACCTT
*
34950718 AAAAACTCT
1 -AAACCT-T
34950727 AAACCTT
1 AAACCTT
*
34950734 AAACCTAA
1 AAACCT-T
34950742 AAACCTT
1 AAACCTT
*
34950749 AAACCCT
1 AAACCTT
34950756 AAACCT
1 AAACCT
34950762 AAAAAACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 3 0.06
7 30 0.64
8 13 0.28
9 1 0.02
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCTT
Found at i:34950723 original size:15 final size:16
Alignment explanation
Indices: 34950711--34950773 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 16
34950701 CCCTAAACCT
34950711 TAAA-CTTAAAAACTC
1 TAAACCTTAAAAACTC
* *
34950726 TAAACCTT-AAACCTA
1 TAAACCTTAAAAACTC
* *
34950741 AAAACCTT--AAACCC
1 TAAACCTTAAAAACTC
*
34950755 TAAACCTAAAAAACTC
1 TAAACCTTAAAAACTC
34950771 TAA
1 TAA
34950774 CCATTAACTT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
14 9 0.25
15 16 0.44
16 11 0.31
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAACCTTAAAAACTC
Found at i:34950837 original size:14 final size:14
Alignment explanation
Indices: 34950800--34950852 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
34950790 CCCAAACCCC
* *
34950800 AAACCTTAAACCTAA
1 AAACCCTAAA-CTTA
* *
34950815 AAACTCTAAACTTT
1 AAACCCTAAACTTA
34950829 AAACCCTAAACTTA
1 AAACCCTAAACTTA
34950843 AAACCCTAAA
1 AAACCCTAAA
34950853 TCCTAAACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 24 0.75
15 8 0.25
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACTTA
Found at i:34950890 original size:29 final size:28
Alignment explanation
Indices: 34950842--34950908 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
34950832 CCCTAAACTT
**
34950842 AAAACCCTAAATCCTAAACTTAAAAACC
1 AAAACCCTAAAGACTAAACTTAAAAACC
* *
34950870 ACAAACCCTAAAGACTTAACTTTAAAACC
1 A-AAACCCTAAAGACTAAACTTAAAAACC
*
34950899 ATAACCCTAA
1 AAAACCCTAA
34950909 TTCTAACCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.19
Consensus pattern (28 bp):
AAAACCCTAAAGACTAAACTTAAAAACC
Found at i:34951103 original size:14 final size:14
Alignment explanation
Indices: 34951086--34951138 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
34951076 TAAAAACCTT
34951086 AAACCCTAAACTTA
1 AAACCCTAAACTTA
34951100 AAACCCCTAAATCTTA
1 AAA-CCCTAAA-CTTA
* *
34951116 AAA-CATTAACTTTA
1 AAACCCTAAAC-TTA
34951130 AAACCCTAA
1 AAACCCTAA
34951139 CCCTTAAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
13 1 0.03
14 13 0.42
15 10 0.32
16 7 0.23
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCCTAAACTTA
Found at i:34951107 original size:15 final size:16
Alignment explanation
Indices: 34951089--34951119 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34951079 AAACCTTAAA
34951089 CCCTAAA-CTTAAAAC
1 CCCTAAATCTTAAAAC
34951104 CCCTAAATCTTAAAAC
1 CCCTAAATCTTAAAAC
34951120 ATTAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (16 bp):
CCCTAAATCTTAAAAC
Found at i:34954558 original size:125 final size:125
Alignment explanation
Indices: 34954311--34954875 Score: 735
Period size: 125 Copynumber: 4.5 Consensus size: 125
34954301 CAAACATGCT
* * *
34954311 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTTTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT-
*
34954376 T-AAGCGA-TTTTATACTATTAGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
65 TGAAGC-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * *
34954436 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTAAAAATTCTTTTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* ** *
34954500 TGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTTAGGACCT
65 TGAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * *
34954561 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
** *
34954626 GAAGCAAATTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * *
34954686 ACTGTAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
** *
34954751 GAAGTGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCT
66 GAAG-CATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * * * * * * *
34954811 ACTGTAGCAAAAGCGCGTACTCGTGGGCGCGACTGCAAAAATCCTTCTGATAAATCATTCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
34954876 TGATTTTAGC
Statistics
Matches: 382, Mismatches: 51, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
124 42 0.11
125 260 0.68
126 80 0.21
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
GAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:34954750 original size:250 final size:250
Alignment explanation
Indices: 34954309--34954842 Score: 879
Period size: 250 Copynumber: 2.1 Consensus size: 250
34954299 CCCAAACATG
*
34954309 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTTTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
* * * *
34954374 TATAAGCGATTTTATACTATTAGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
66 TAGAAGCAAATTTATACTATTAGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
* **
34954439 GTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTAAAAATTCTTTTCAAATAGCATCCTGCTTGAA
131 GTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCAAAAATTCTTCGCAAATAGCATCCTGCTTGAA
**
34954504 GCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTTAGGAC
196 GCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAGGAC
*
34954559 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
*
34954624 TAGAAGCAAATTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
66 TAGAAGCAAATTTATACTATTAGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
* * * *
34954689 GTAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGAA
131 GTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCAAAAATTCTTCGCAAATAGCATCCTGCTTGAA
** *
34954754 GTGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
196 GCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAGGAC
* *
34954809 CTACTGTAGCAAAAGCGCGTACTCGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGA
34954843 CTGCAAAAAT
Statistics
Matches: 263, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
250 263 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
TAGAAGCAAATTTATACTATTAGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
GTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCAAAAATTCTTCGCAAATAGCATCCTGCTTGAA
GCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAGGAC
Found at i:34958545 original size:26 final size:27
Alignment explanation
Indices: 34958499--34958550 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
34958489 TAAATTTTTA
34958499 TGAACTTTTTATAATTATTTTAAATTT
1 TGAACTTTTTATAATTATTTTAAATTT
34958526 TGAACTTTTTTATAA-T-TTTTAAATT
1 TGAAC-TTTTTATAATTATTTTAAATT
34958551 ATTTATTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 9 0.38
27 6 0.25
28 9 0.38
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TGAACTTTTTATAATTATTTTAAATTT
Found at i:34958555 original size:18 final size:19
Alignment explanation
Indices: 34958488--34958556 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
34958478 AGCTAAAATG
*
34958488 TTAAATT-TTTATGAACTTT
1 TTAAATTATTTAT-AAATTT
34958507 TTATAATTATTT-TAAATTT
1 TTA-AATTATTTATAAATTT
* * *
34958526 TGAACTTTTTTAT-AATTT
1 TTAAATTATTTATAAATTT
34958544 TTAAATTATTTAT
1 TTAAATTATTTAT
34958557 TGACTGACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 21 0.52
19 11 0.28
20 5 0.12
21 3 0.08
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTAAATTATTTATAAATTT
Found at i:34961864 original size:22 final size:19
Alignment explanation
Indices: 34961836--34961880 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
34961826 TTTTATACTT
34961836 TTTTAAAATATAAATTTTAGAA
1 TTTTAAAA-AT-AATTTT-GAA
*
34961858 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATAATTTTGAA
34961877 TTTT
1 TTTT
34961881 TTCCGTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 2 0.09
22 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATAATTTTGAA
Found at i:34964141 original size:15 final size:15
Alignment explanation
Indices: 34964102--34964143 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34964092 TATTTGAAAT
*
34964102 ATTTTAATATAATTTA
1 ATTTTAAAAT-ATTTA
*
34964118 A-TATAAAATATTTA
1 ATTTTAAAATATTTA
34964132 ATTTTAAAATAT
1 ATTTTAAAATAT
34964144 AATTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 15 0.68
16 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTAAAATATTTA
Found at i:34964310 original size:23 final size:20
Alignment explanation
Indices: 34964257--34964316 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
34964247 ATATTAAAAA
34964257 TATTATTAAATTATATATTAT
1 TATTATTAAATTAT-TATTAT
*
34964278 TATTTTTTAAAATTATTGATTAT
1 TA-TTATT-AAATTATT-ATTAT
34964301 TGATTATTAAATTATT
1 T-ATTATTAAATTATT
34964317 TTTAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 2 0.06
22 13 0.39
23 17 0.52
24 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTATTAAATTATTATTAT
Found at i:34965362 original size:59 final size:57
Alignment explanation
Indices: 34965283--34965421 Score: 174
Period size: 59 Copynumber: 2.4 Consensus size: 57
34965273 CAGTACAGTT
* *
34965283 TGAATTTTTTTTTTCCAAGTTAGT-CTCTAAACTTGGCAGTTGTTCCCACATTAGGG-C
1 TGAA-TTTTTTTATCCAAGTTAGTCCT-TAAACTTGGCAATTGTTCCCACATTAGGGTC
* * *
34965340 TTGGACTTTATTTTATCCAAGTTACTCCTTAAACTTGGCAATTGTTCCCACGTTAGGGTC
1 -T-GAATTT-TTTTATCCAAGTTAGTCCTTAAACTTGGCAATTGTTCCCACATTAGGGTC
34965400 TGAATTTTTTTATCCAAGTTAG
1 TGAATTTTTTTATCCAAGTTAG
34965422 CCCCTGATCT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
57 14 0.20
58 9 0.13
59 44 0.63
60 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (57 bp):
TGAATTTTTTTATCCAAGTTAGTCCTTAAACTTGGCAATTGTTCCCACATTAGGGTC
Found at i:34965829 original size:27 final size:27
Alignment explanation
Indices: 34965780--34965832 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34965770 CCACCTAATA
**
34965780 AATAACCTTATAAATGTGTTTTTTTTT
1 AATAACCTTATAAATGTCATTTTTTTT
34965807 AATAATCCTTATAAAT-TCATTTTTTT
1 AATAA-CCTTATAAATGTCATTTTTTT
34965833 CTAAGCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
AATAACCTTATAAATGTCATTTTTTTT
Found at i:34965829 original size:28 final size:27
Alignment explanation
Indices: 34965780--34965832 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
34965770 CCACCTAATA
*
34965780 AATAACCTTATAAATGTGTTTTTTTTT
1 AATAACCTTATAAATGTATTTTTTTTT
34965807 AATAATCCTTATAAAT-TCATTTTTTT
1 AATAA-CCTTATAAATGT-ATTTTTTT
34965833 CTAAGCCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
AATAACCTTATAAATGTATTTTTTTTT
Found at i:34967749 original size:23 final size:23
Alignment explanation
Indices: 34967719--34967766 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
34967709 AGTAGAGATA
34967719 ATTTGCTTCAACGATGATAAATC
1 ATTTGCTTCAACGATGATAAATC
34967742 ATTTGCTTCAACGATGATAAATC
1 ATTTGCTTCAACGATGATAAATC
34967765 AT
1 AT
34967767 ACTTATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (23 bp):
ATTTGCTTCAACGATGATAAATC
Found at i:34970010 original size:93 final size:94
Alignment explanation
Indices: 34969892--34970076 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 94
34969882 GATATAACAA
34969892 AAAAAATTTAAAGAATAAAAAGCATAGATCTGCAATATGTCAATCTCTTAAAAGTTGTACATGTA
1 AAAAAATTT-AAGAATAAAAAGCATAGATCTGCAATATGTCAATCTCTTAAAAGTTGTACATGTA
34969957 TACATTTTAATATTGTACAATTCTTTAAAT
65 TACATTTTAATATTGTACAATTCTTTAAAT
34969987 AAAAAATTT-AGAATAAAAAGCATAGATCTGCAATATGTCAATCTCTTAAAAGTTGTACATGTAT
1 AAAAAATTTAAGAATAAAAAGCATAGATCTGCAATATGTCAATCTCTTAAAAGTTGTACATGTAT
34970051 ACATTTTAATATTGTACAATTCTTTA
66 ACATTTTAATATTGTACAATTCTTTA
34970077 TAAAATGATT
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
93 81 0.90
95 9 0.10
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (94 bp):
AAAAAATTTAAGAATAAAAAGCATAGATCTGCAATATGTCAATCTCTTAAAAGTTGTACATGTAT
ACATTTTAATATTGTACAATTCTTTAAAT
Found at i:34973084 original size:14 final size:14
Alignment explanation
Indices: 34973050--34973086 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
34973040 ATTTTATTTT
34973050 AAAAATT-ATA-TA
1 AAAAATTAATATTA
34973062 AAAAA-TAATATTA
1 AAAAATTAATATTA
34973075 AAAAATTAATAT
1 AAAAATTAATAT
34973087 GGACGGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.05
12 8 0.36
13 7 0.32
14 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAATTAATATTA
Found at i:34976499 original size:116 final size:117
Alignment explanation
Indices: 34976353--34976587 Score: 454
Period size: 116 Copynumber: 2.0 Consensus size: 117
34976343 ATATGAACTC
34976353 AATGATAATTTATATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCA
1 AATGATAATTTATATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCA
34976418 TATGACATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATAT
66 TATGACATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATAT
34976470 AATGATAATTTA-ATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCA
1 AATGATAATTTATATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCA
*
34976534 TATGACATGACAAAAAAAACTAGTTCTAATTAAATGTTTTTAAATTTTATAT
66 TATGACATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATAT
34976586 AA
1 AA
34976588 AATATATTAA
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
116 105 0.90
117 12 0.10
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (117 bp):
AATGATAATTTATATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCA
TATGACATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATAT
Found at i:34976616 original size:116 final size:116
Alignment explanation
Indices: 34976357--34976632 Score: 389
Period size: 116 Copynumber: 2.4 Consensus size: 116
34976347 GAACTCAATG
* **
34976357 ATAATTTATATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCATATG
1 ATAATTTA-ATCAATTATATGAAATAAAAACATTTTATTAAATAATAAAAATATAAACGCATATG
*
34976422 ACATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATATAATG
65 ACATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATATAATA
* **
34976474 ATAATTTAATTAATTATATGGGATAAAAACATTTTATTAAATAATAAAAATATAAACGCATATGA
1 ATAATTTAATCAATTATATGAAATAAAAACATTTTATTAAATAATAAAAATATAAACGCATATGA
*
34976539 CATGACAAAAAAAACTAGTTCTAATTAAATGTTTTTAAATTTTATATAA-A
66 CATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATATAATA
* *
34976589 AT-ATATTAATCATATT-TGATTAAATAAAAA-ATATTTAATAAATA
1 ATAAT-TTAATCA-ATTAT-ATGAAATAAAAACAT-TTTATTAAATA
34976633 GAATTATATT
Statistics
Matches: 148, Mismatches: 7, Indels: 9
0.90 0.04 0.05
Matches are distributed among these distances:
114 2 0.01
115 11 0.07
116 127 0.86
117 8 0.05
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (116 bp):
ATAATTTAATCAATTATATGAAATAAAAACATTTTATTAAATAATAAAAATATAAACGCATATGA
CATGACAAAAAAAACTAGTTCTAATAAAATGTTTTTAAATTTTATATAATA
Found at i:34991941 original size:4 final size:4
Alignment explanation
Indices: 34991932--34991965 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
34991922 AAAAAAAGGT
* *
34991932 AATA AATA AATG AATA GATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
34991966 CAGCTTGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:34993538 original size:44 final size:44
Alignment explanation
Indices: 34993476--34993948 Score: 333
Period size: 44 Copynumber: 10.8 Consensus size: 44
34993466 TTGCTACTTT
* * *
34993476 AATCTGCTCCGCTACAACTTCAGGGATATAAGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
*
34993520 AATCTACTCCACTGCAACTTCAGGGA-ATAAGATTTGTAACTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTC
* * * * *
34993570 AATCTGTTCCACTGGAACTTCAGGGAAATGAGATTTA-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * *
34993614 AAT-TCGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTT
1 AATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * *
34993658 AATCTGCTCCACTGTAACTTTATGGAGATTAGATTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * * *
34993702 AATATGCTCTACTGCAACTTTAGAGAGATAAGATTAAT-TCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
** * * * *
34993745 AATCTGCTCCACTGCAACTTCAAAGAGATCATATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * * * * * *
34993789 AATCTGTTCCACTACAATTTCAGGGAAATCATATTTGCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * *
34993833 AATTTGTTCCACTGCAACTTCAGGGAGGTAAGATT--T-G--T-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * *
34993871 -ATCTACTCCACTGCAACTTCAAGGAGATAA-ATTTTGT-GACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAG-CTTC
**
34993914 AATCTTTTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
34993949 CGTCACGACG
Statistics
Matches: 342, Mismatches: 66, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
36 1 0.00
37 27 0.08
39 3 0.01
42 1 0.00
43 43 0.13
44 222 0.65
45 3 0.01
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
50 33 0.10
51 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:34993825 original size:131 final size:124
Alignment explanation
Indices: 34993619--34993948 Score: 313
Period size: 131 Copynumber: 2.6 Consensus size: 124
34993609 GCTTTAATTC
* * * * * *
34993619 GCTCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTTAATCTGCTCCACTGTAACTTT-ATGG
1 GCTCCACTGCAACTTCAAGGAGATAA-ATTTGTAGCTTTAATCTGTTCCACTGCAA-TTTCAGGG
* * * * * *
34993683 AGATTAGATTTGTAGCTTCAATATGCTCTACTGCAACTTTAGAGAGATAAGATTAATTCTTCAAT
64 AAATCAGATTTGCAGCTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGA-T--TT-GT--AT
34993748 CT
123 CT
* * *
34993750 GCTCCACTGCAACTTCAAAGAGATCATATTTGTAGCTTTAATCTGTTCCACTACAATTTCAGGGA
1 GCTCCACTGCAACTTCAAGGAGAT-AAATTTGTAGCTTTAATCTGTTCCACTGCAATTTCAGGGA
* * * * * *
34993815 AATCATATTTGCATCTTCAATTTGTTCCACTGCAACTTCAGGGAGGTAAGATTTGTATCT
65 AATCAGATTTGCAGCTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATTTGTATCT
* * *
34993875 ACTCCACTGCAACTTCAAGGAGATAAATTTTGT-GACTTTAATCTTTTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAAGGAGATAAA-TTTGTAG-CTTTAATCTGTTCCACTGCAATTTCAGGG
* *
34993939 AGATAAGATT
64 AAATCAGATT
34993949 CGTCACGACG
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
124 3 0.02
125 64 0.39
127 1 0.01
128 2 0.01
130 4 0.02
131 90 0.55
132 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (124 bp):
GCTCCACTGCAACTTCAAGGAGATAAATTTGTAGCTTTAATCTGTTCCACTGCAATTTCAGGGAA
ATCAGATTTGCAGCTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATTTGTATCT
Found at i:34995738 original size:16 final size:16
Alignment explanation
Indices: 34995717--34995747 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34995707 GAGAAAAGTC
34995717 ATGACAAGAAGAGGTT
1 ATGACAAGAAGAGGTT
*
34995733 ATGACATGAAGAGGT
1 ATGACAAGAAGAGGT
34995748 GAAAGAGGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.19
Consensus pattern (16 bp):
ATGACAAGAAGAGGTT
Found at i:35002789 original size:3 final size:3
Alignment explanation
Indices: 35002781--35002827 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
35002771 ATCAAGAACC
35002781 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35002828 GATGATGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35012308 original size:33 final size:33
Alignment explanation
Indices: 35012207--35012312 Score: 158
Period size: 33 Copynumber: 3.2 Consensus size: 33
35012197 CCGGCCTTGG
**
35012207 CTCCGGCGAGTCACTGTCACGATATCCACCAGT
1 CTCCGGCGAGTCACTGTCACGACGTCCACCAGT
35012240 CTCCGGCGAGTCACTGTCACGACGTCCACCAGT
1 CTCCGGCGAGTCACTGTCACGACGTCCACCAGT
* * * *
35012273 CTCCGGCGAGTCACTGTCATGACGGCCGCCGGT
1 CTCCGGCGAGTCACTGTCACGACGTCCACCAGT
35012306 CTCCGGC
1 CTCCGGC
35012313 AACGACTCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (33 bp):
CTCCGGCGAGTCACTGTCACGACGTCCACCAGT
Found at i:35012770 original size:11 final size:11
Alignment explanation
Indices: 35012754--35012783 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35012744 CTACTTGCTA
*
35012754 CTATTTCTCTT
1 CTATTTCTCTG
35012765 CTATTTCTCTG
1 CTATTTCTCTG
35012776 CTATTTCT
1 CTATTTCT
35012784 GCCTTTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.03, T:0.60
Consensus pattern (11 bp):
CTATTTCTCTG
Found at i:35017323 original size:16 final size:17
Alignment explanation
Indices: 35017302--35017339 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
35017292 TTCTATAGGA
*
35017302 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
35017318 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
35017336 ATTT
1 ATTT
35017340 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:35029675 original size:24 final size:24
Alignment explanation
Indices: 35029619--35029682 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
35029609 AATTTTATAT
* * * *
35029619 TTTTTAAAAAAATTATTTTTTTTA
1 TTTTTAAATATATTATCTATTTTA
35029643 TTTTTAAATATATTATCTATTTTA
1 TTTTTAAATATATTATCTATTTTA
35029667 TTTTTAAATATATTAT
1 TTTTTAAATATATTAT
35029683 AAAATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTAAATATATTATCTATTTTA
Found at i:35029689 original size:25 final size:24
Alignment explanation
Indices: 35029638--35029690 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
35029628 AAATTATTTT
**
35029638 TTTTATTTTTAAATATATTATCTA
1 TTTTATTTTTAAATATATTATAAA
35029662 TTTTATTTTTAAATATATTATAAAA
1 TTTTATTTTTAAATATATTAT-AAA
35029687 TTTT
1 TTTT
35029691 GANNNNNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATTTTTAAATATATTATAAA
Found at i:35031309 original size:17 final size:17
Alignment explanation
Indices: 35031287--35031322 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
35031277 ATAACATCGA
35031287 TAATTTAAAAATGTAAT
1 TAATTTAAAAATGTAAT
*
35031304 TAATTTAAAGATGTAAT
1 TAATTTAAAAATGTAAT
35031321 TA
1 TA
35031323 GAACACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TAATTTAAAAATGTAAT
Found at i:35034094 original size:229 final size:230
Alignment explanation
Indices: 35033680--35034141 Score: 908
Period size: 229 Copynumber: 2.0 Consensus size: 230
35033670 TTTATCCTTT
35033680 TTAAAAAAATTCAAAATGATAAGGTGGAGAATCATTAGATAACTAAATTATCATATTAATTATAT
1 TTAAAAAAATTCAAAATGATAAGGTGGAGAATCATTAGATAACTAAATTATCATATTAATTATAT
35033745 TGTTTTTTTGCTATTATTTTTAACTTTTTATTTCAACTTAAAAAAATTATTCAAAAATGTTTTAA
66 TGTTTTTTTGCTATTATTTTTAACTTTTTATTTCAACTTAAAAAAATTATTCAAAAATGTTTTAA
35033810 TCAAATTAAAAAATAAAATAAAATCATCAACTCAATTAATAGGGAAAAACACCATTAAAAGCCCC
131 TCAAATTAAAAAATAAAATAAAATCATCAACTCAATTAATAGGGAAAAACACCATTAAAAGCCCC
35033875 TTTTTTTAAATTTACTGAAATGGGCCAGTATTTTA
196 TTTTTTTAAATTTACTGAAATGGGCCAGTATTTTA
*
35033910 TTAAAAAAATTC-AAATGATAAGTTGGAGAATCATTAGATAACTAAATTATCATATTAATTATAT
1 TTAAAAAAATTCAAAATGATAAGGTGGAGAATCATTAGATAACTAAATTATCATATTAATTATAT
35033974 TGTTTTTTTGCTATTATTTTTAACTTTTTATTTCAACTTAAAAAAATTATTCAAAAATGTTTTAA
66 TGTTTTTTTGCTATTATTTTTAACTTTTTATTTCAACTTAAAAAAATTATTCAAAAATGTTTTAA
35034039 TCAAATTAAAAAATAAAATAAAATCATCAACTCAATTAATAGGGAAAAACACCATTAAAAGCCCC
131 TCAAATTAAAAAATAAAATAAAATCATCAACTCAATTAATAGGGAAAAACACCATTAAAAGCCCC
35034104 TTTTTTTAAATTTACTGAAATGGGCCAGTATTTTA
196 TTTTTTTAAATTTACTGAAATGGGCCAGTATTTTA
35034139 TTA
1 TTA
35034142 TTTACCGGAA
Statistics
Matches: 231, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
229 219 0.95
230 12 0.05
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (230 bp):
TTAAAAAAATTCAAAATGATAAGGTGGAGAATCATTAGATAACTAAATTATCATATTAATTATAT
TGTTTTTTTGCTATTATTTTTAACTTTTTATTTCAACTTAAAAAAATTATTCAAAAATGTTTTAA
TCAAATTAAAAAATAAAATAAAATCATCAACTCAATTAATAGGGAAAAACACCATTAAAAGCCCC
TTTTTTTAAATTTACTGAAATGGGCCAGTATTTTA
Found at i:35034760 original size:125 final size:125
Alignment explanation
Indices: 35034538--35034950 Score: 612
Period size: 125 Copynumber: 3.3 Consensus size: 125
35034528 ATTTATTAAG
* * * *
35034538 GAAATCGCTCCCACGTGGACCCATTTTTGA-TACAGTAGGTCCTGAAAAAATAATTTTGAGTTTA
1 GAAATCGCTCCCACGTGGACGCACTTTT-ACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAA
* * * * * *
35034602 CGTTTTTGAGCAAATAGTATAAAAAACACTTCAAGCAGGATGCTTTATAAAAAGAATTTCT
65 CGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTTT
** *
35034663 GAAATCGCTCCCACGTGGACGTGCTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCACTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
*
35034728 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTTT
* * *
35034788 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACGTGGACGCACTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
* *
35034853 GTTTCTGATCAAATAGTATAAAAAACGCTTCAAATAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTTT
* * *
35034913 TAAATAGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCACTTTTACTACAGTAG
35034951 CATGTGTGGG
Statistics
Matches: 264, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
124 1 0.00
125 263 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCACTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAACAGGATGCTTTATCAGAAGAATTTTT
Found at i:35040432 original size:11 final size:12
Alignment explanation
Indices: 35040416--35040452 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
35040406 AAAAATAGGG
35040416 ATTTAAGA-GAA
1 ATTTAAGAGGAA
35040427 ATTTAAGAGGAA
1 ATTTAAGAGGAA
*
35040439 A-TTGAGAGGAA
1 ATTTAAGAGGAA
35040450 ATT
1 ATT
35040453 GAGAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGGAA
Found at i:35040453 original size:11 final size:11
Alignment explanation
Indices: 35040432--35040456 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35040422 GAGAAATTTA
35040432 AGAGGAAATTG
1 AGAGGAAATTG
35040443 AGAGGAAATTG
1 AGAGGAAATTG
35040454 AGA
1 AGA
35040457 AATGATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:35049197 original size:19 final size:17
Alignment explanation
Indices: 35049175--35049225 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
35049165 AATTTTACAA
35049175 TTTTTTATATTTTTACGAT
1 TTTTTTATATTTTTA--AT
* *
35049194 TTTTATAAATTTTTAAT
1 TTTTTTATATTTTTAAT
35049211 TTTTTTATATTTTTA
1 TTTTTTATATTTTTA
35049226 TTAAAATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.54
19 13 0.46
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTTATATTTTTAAT
Found at i:35049215 original size:36 final size:38
Alignment explanation
Indices: 35049146--35049225 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 38
35049136 TTCGTTAATT
*
35049146 TTTTTATGATTTTTCATAAAATTTTACAATTTTTTATA
1 TTTTTACGATTTTTCATAAAATTTTACAATTTTTTATA
* *
35049184 TTTTTACGATTTTT-ATAAATTTTTA-ATTTTTTTATA
1 TTTTTACGATTTTTCATAAAATTTTACAATTTTTTATA
35049220 TTTTTA
1 TTTTTA
35049226 TTAAAATTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
36 16 0.41
37 10 0.26
38 13 0.33
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.65
Consensus pattern (38 bp):
TTTTTACGATTTTTCATAAAATTTTACAATTTTTTATA
Found at i:35049230 original size:28 final size:28
Alignment explanation
Indices: 35049173--35049226 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
35049163 AAAATTTTAC
*
35049173 AATTTTTTATATTTTTACGATTTTTATA
1 AATTTTTAATATTTTTACGATTTTTATA
* *
35049201 AATTTTTAATTTTTTTA-TATTTTTAT
1 AATTTTTAATATTTTTACGATTTTTAT
35049227 TAAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
AATTTTTAATATTTTTACGATTTTTATA
Found at i:35061009 original size:20 final size:20
Alignment explanation
Indices: 35060963--35061009 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35060953 GCATAAGATT
*
35060963 TTATAAAAATACATACAAAG
1 TTATAAAAATACATACAAAA
*
35060983 TTGTAAAAACT-CATACAAAA
1 TTATAAAAA-TACATACAAAA
35061003 TTATAAA
1 TTATAAA
35061010 TTATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (20 bp):
TTATAAAAATACATACAAAA
Found at i:35061361 original size:714 final size:714
Alignment explanation
Indices: 35060458--35061894 Score: 2849
Period size: 714 Copynumber: 2.0 Consensus size: 714
35060448 ACTTTTATAT
35060458 TTTGTATTTTTTTTAAAAATAGTTTTAAATGGTTTTTAAGTTTTTTGGGATGATGATTGGTTAGA
1 TTTGTA-TTTTTTTAAAAATAGTTTTAAATGGTTTTTAAGTTTTTTGGGATGATGATTGGTTAGA
35060523 TATGTGAATCAATTTTTTTTAACATCCAAAGAATTAAACCAGAATATTTGATAATGTTAGAAATT
65 TATGTGAATCAATTTTTTTTAACATCCAAAGAATTAAACCAGAATATTTGATAATGTTAGAAATT
35060588 GAACTGGAAATGTTTGATAACGTTTAGCAACGGAAGTGGGTTAAAAAGAACTTGGGTAAACTATA
130 GAACTGGAAATGTTTGATAACGTTTAGCAACGGAAGTGGGTTAAAAAGAACTTGGGTAAACTATA
35060653 TACATAGTCATCCAACTATTAGTGTGTTTCTATTTTAGTCACTAATATAATTGAAAATTAATATT
195 TACATAGTCATCCAACTATTAGTGTGTTTCTATTTTAGTCACTAATATAATTGAAAATTAATATT
35060718 TTGGTCAGTTTTTCGTTAAATCACTAAAGGAGTGCTAATGTAGTCATTTTTATTGACATAATAAC
260 TTGGTCAGTTTTTCGTTAAATCACTAAAGGAGTGCTAATGTAGTCATTTTTATTGACATAATAAC
35060783 AAATTTAACCCTCTAATGTTTACAAATTCTATCGATTTGGTCCTAATTCTAAAAAAAGCAACAAA
325 AAATTTAACCCTCTAATGTTTACAAATTCTATCGATTTGGTCCTAATTCTAAAAAAAGCAACAAA
35060848 TGTAACTCTCAACTTTACACATTATGTCAATTTAGTCTTACTTCTTAAAAACCTAAAATTAAAAA
390 TGTAACTCTCAACTTTACACATTATGTCAATTTAGTCTTACTTCTTAAAAACCTAAAATTAAAAA
35060913 AATTTTAAAAATGATTTTAATGGTCATTTTCGATAAAAATGCATAAGATTTTATAAAAATACATA
455 AATTTTAAAAATGATTTTAATGGTCATTTTCGATAAAAATGCATAAGATTTTATAAAAATACATA
35060978 CAAAGTTGTAAAAACTCATACAAAATTATAAATTATAAATAAATTAATACATTTTTTCTCTTTTT
520 CAAAGTTGTAAAAACTCATACAAAATTATAAATTATAAATAAATTAATACATTTTTTCTCTTTTT
35061043 CTTACATGAAATTTATTTATTAAAATAATAATTTTATAAATAAAATAATTTATTTTAAAACTCCC
585 CTTACATGAAATTTATTTATTAAAATAATAATTTTATAAATAAAATAATTTATTTTAAAACTCCC
35061108 AAACAAAACTTAAATTGGATTTGAACTTTTCCTTTTCTTTTTTTAGTTTTATTTTATAATTAAAA
650 AAACAAAACTTAAATTGGATTTGAACTTTTCCTTTTCTTTTTTTAGTTTTATTTTATAATTAAAA
35061173 TTTGTATTTTTTTAAAAATAGTTTTAAATGGTTTTTAAGTTTTTTGGGATGATGATTGGTTAGAT
1 TTTGTATTTTTTTAAAAATAGTTTTAAATGGTTTTTAAGTTTTTTGGGATGATGATTGGTTAGAT
35061238 ATGTGAATCAATTTTTTTTAACATCCAAAGAATTAAACCAGAATATTTGATAATGTTAGAAATTG
66 ATGTGAATCAATTTTTTTTAACATCCAAAGAATTAAACCAGAATATTTGATAATGTTAGAAATTG
35061303 AACTGGAAATGTTTGATAACGTTTAGCAACGGAAGTGGGTTAAAAAGAACTTGGGTAAACTATAT
131 AACTGGAAATGTTTGATAACGTTTAGCAACGGAAGTGGGTTAAAAAGAACTTGGGTAAACTATAT
35061368 ACATAGTCATCCAACTATTAGTGTGTTTCTATTTTAGTCACTAATATAATTGAAAATTAATATTT
196 ACATAGTCATCCAACTATTAGTGTGTTTCTATTTTAGTCACTAATATAATTGAAAATTAATATTT
35061433 TGGTCAGTTTTTCGTTAAATCACTAAAGGAGTGCTAATGTAGTCATTTTTATTGACATAATAACA
261 TGGTCAGTTTTTCGTTAAATCACTAAAGGAGTGCTAATGTAGTCATTTTTATTGACATAATAACA
35061498 AATTTAACCCTCTAATGTTTACAAATTCTATCGATTTGGTCCTAATTCTAAAAAAAGCAACAAAT
326 AATTTAACCCTCTAATGTTTACAAATTCTATCGATTTGGTCCTAATTCTAAAAAAAGCAACAAAT
35061563 GTAACTCTCAACTTTACACATTATGTCAATTTAGTCTTACTTCTTAAAAACCTAAAATTAAAAAA
391 GTAACTCTCAACTTTACACATTATGTCAATTTAGTCTTACTTCTTAAAAACCTAAAATTAAAAAA
35061628 ATTTTAAAAATGATTTTAATGGTCATTTTCGATAAAAATGCATAAGATTTTATAAAAATACATAC
456 ATTTTAAAAATGATTTTAATGGTCATTTTCGATAAAAATGCATAAGATTTTATAAAAATACATAC
35061693 AAAGTTGTAAAAACTCATACAAAATTATAAATTATAAATAAATTAATACATTTTTTCTCTTTTTC
521 AAAGTTGTAAAAACTCATACAAAATTATAAATTATAAATAAATTAATACATTTTTTCTCTTTTTC
35061758 TTACATGAAATTTATTTATTAAAATAATAATTTTATAAATAAAATAATTTATTTTAAAACTCCCA
586 TTACATGAAATTTATTTATTAAAATAATAATTTTATAAATAAAATAATTTATTTTAAAACTCCCA
35061823 AACAAAACTTAAATTGGATTTGAACTTTTCCTTTTCTTTTTTTAGTTTTATTTTATAATTAAAA
651 AACAAAACTTAAATTGGATTTGAACTTTTCCTTTTCTTTTTTTAGTTTTATTTTATAATTAAAA
*
35061887 ATT-TATTT
1 TTTGTATTT
35061895 ATTATAAATT
Statistics
Matches: 721, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
713 5 0.01
714 710 0.98
715 6 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (714 bp):
TTTGTATTTTTTTAAAAATAGTTTTAAATGGTTTTTAAGTTTTTTGGGATGATGATTGGTTAGAT
ATGTGAATCAATTTTTTTTAACATCCAAAGAATTAAACCAGAATATTTGATAATGTTAGAAATTG
AACTGGAAATGTTTGATAACGTTTAGCAACGGAAGTGGGTTAAAAAGAACTTGGGTAAACTATAT
ACATAGTCATCCAACTATTAGTGTGTTTCTATTTTAGTCACTAATATAATTGAAAATTAATATTT
TGGTCAGTTTTTCGTTAAATCACTAAAGGAGTGCTAATGTAGTCATTTTTATTGACATAATAACA
AATTTAACCCTCTAATGTTTACAAATTCTATCGATTTGGTCCTAATTCTAAAAAAAGCAACAAAT
GTAACTCTCAACTTTACACATTATGTCAATTTAGTCTTACTTCTTAAAAACCTAAAATTAAAAAA
ATTTTAAAAATGATTTTAATGGTCATTTTCGATAAAAATGCATAAGATTTTATAAAAATACATAC
AAAGTTGTAAAAACTCATACAAAATTATAAATTATAAATAAATTAATACATTTTTTCTCTTTTTC
TTACATGAAATTTATTTATTAAAATAATAATTTTATAAATAAAATAATTTATTTTAAAACTCCCA
AACAAAACTTAAATTGGATTTGAACTTTTCCTTTTCTTTTTTTAGTTTTATTTTATAATTAAAA
Found at i:35061723 original size:20 final size:20
Alignment explanation
Indices: 35061677--35061723 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35061667 GCATAAGATT
*
35061677 TTATAAAAATACATACAAAG
1 TTATAAAAATACATACAAAA
*
35061697 TTGTAAAAACT-CATACAAAA
1 TTATAAAAA-TACATACAAAA
35061717 TTATAAA
1 TTATAAA
35061724 TTATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (20 bp):
TTATAAAAATACATACAAAA
Found at i:35067225 original size:21 final size:21
Alignment explanation
Indices: 35067176--35067226 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
35067166 GTTGCAACAA
*
35067176 AGCTTCTCTCTTTTTCCATTC
1 AGCTTCTTTCTTTTTCCATTC
35067197 AGCTTCTTTCTTTTTCCATTC
1 AGCTTCTTTCTTTTTCCATTC
35067218 AGCTTCTTT
1 AGCTTCTTT
35067227 TTTAATTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.29, G:0.06, T:0.55
Consensus pattern (21 bp):
AGCTTCTTTCTTTTTCCATTC
Found at i:35069546 original size:23 final size:23
Alignment explanation
Indices: 35069503--35069567 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
35069493 ATAATAAAAC
* * *
35069503 AAATAAATAA-AGAAGGTATAAAT
1 AAATAAATAAGAAAAAG-ATAAAG
35069526 AAATAAATAAGAAAAAGATAAAG
1 AAATAAATAAGAAAAAGATAAAG
35069549 AAATAGAA-ATAGAAAAAGA
1 AAATA-AATA-AGAAAAAGA
35069568 GACAAAGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.15
Consensus pattern (23 bp):
AAATAAATAAGAAAAAGATAAAG
Found at i:35069548 original size:6 final size:6
Alignment explanation
Indices: 35069534--35069617 Score: 73
Period size: 6 Copynumber: 13.5 Consensus size: 6
35069524 ATAAATAAAT
* * *
35069534 AAGAAA AAGATA AAGAAA TAGAAA TAGAAA AAGAGACA AAGCAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA-A-A AAG--AAA AAGAAA
*
35069586 CAAG-AA AAGAAA AAG-GA AAGAAA AAGAAA AAG
1 -AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
35069618 GGAAAGAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
5 7 0.11
6 44 0.68
7 4 0.06
8 8 0.12
9 1 0.02
10 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:35069606 original size:16 final size:17
Alignment explanation
Indices: 35069587--35069630 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
35069577 AAAAAGAAAC
35069587 AAGAAAAGAAAAA-GGA
1 AAGAAAAGAAAAAGGGA
35069603 AAGAAAAAGAAAAAGGGA
1 AAG-AAAAGAAAAAGGGA
35069621 AAG-AAAGAAA
1 AAGAAAAGAAA
35069631 GGAGAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
17 10 0.38
18 6 0.23
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAAAAGGGA
Found at i:35070280 original size:6 final size:6
Alignment explanation
Indices: 35070258--35070387 Score: 63
Period size: 6 Copynumber: 21.5 Consensus size: 6
35070248 ATGAATAAAT
* * *
35070258 AAGATA AAGATA AAGAAA AAGAAA TAGAAA AAGAGACA AAGCAAA AACGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA-A-A AAG-AAA AA-GAAA
* * * **
35070310 CAG-AA AAGAAA GAG-GA AAGAAA AAGAAA AAGGGA AAG--A AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * * *
35070354 GGAGAAA AA-AGA AAGAGGA AAGAAT AAGAAA AAG
1 -AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA AAG
35070388 GGAAAGAAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
4 4 0.04
5 11 0.11
6 55 0.57
7 19 0.20
8 6 0.06
9 1 0.01
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:35070344 original size:18 final size:17
Alignment explanation
Indices: 35070269--35070396 Score: 86
Period size: 18 Copynumber: 7.4 Consensus size: 17
35070259 AGATAAAGAT
* *
35070269 AAAGAAAAAGAAATAGAA
1 AAAGAAAAAGAAAAAG-G
*
35070287 AAAGAGACAAAGCAAAAACG
1 AAAGA-A-AAAG-AAAAAGG
* *
35070307 AAACAGAAAAGAAAGAGG
1 AAAGA-AAAAGAAAAAGG
35070325 AAAGAAAAAGAAAAAGGG
1 AAAGAAAAAGAAAAA-GG
35070343 AAAG--AAAG--AAAGG
1 AAAGAAAAAGAAAAAGG
* *
35070356 AGA-AAAAAGAAAGAGG
1 AAAGAAAAAGAAAAAGG
*
35070372 AAAGAATAAGAAAAAGGG
1 AAAGAAAAAGAAAAA-GG
35070390 AAAGAAA
1 AAAGAAA
35070397 GAAAGGAGAA
Statistics
Matches: 86, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
13 4 0.05
14 7 0.08
16 10 0.12
17 18 0.21
18 28 0.33
19 5 0.06
20 10 0.12
21 4 0.05
ACGTcount: A:0.70, C:0.03, G:0.25, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAGG
Found at i:35070346 original size:29 final size:28
Alignment explanation
Indices: 35070300--35070377 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
35070290 GAGACAAAGC
* * *
35070300 AAAAACGAAACAGAAAAGAAAG-AGGAA
1 AAAAAAGAAAAAGGAAAGAAAGAAGGAA
*
35070327 AGAAAAAGAAAAAGGGAAAGAAAGAAAGGAG
1 A-AAAAAGAAAAA-GGAAAGAAAG-AAGGAA
*
35070358 AAAAAAGAAAGAGGAAAGAA
1 AAAAAAGAAAAAGGAAAGAA
35070378 TAAGAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
27 1 0.02
28 9 0.21
29 17 0.40
30 10 0.24
31 5 0.12
ACGTcount: A:0.71, C:0.03, G:0.27, T:0.00
Consensus pattern (28 bp):
AAAAAAGAAAAAGGAAAGAAAGAAGGAA
Done.