Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 220 of 335
Found at i:65996852 original size:17 final size:18
Alignment explanation
Indices: 65996818--65996852 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
65996808 TTTAGATTTT
65996818 TTTTTTCAAATATCATTAC
1 TTTTTTCAAATA-CATTAC
65996837 TTTTTTCAAATA-ATTA
1 TTTTTTCAAATACATTA
65996853 ATCAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
19 12 0.75
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTCAAATACATTAC
Found at i:65996889 original size:2 final size:2
Alignment explanation
Indices: 65996877--65996914 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
65996867 GAACTAAATT
*
65996877 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65996915 TAACACACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:65997784 original size:16 final size:17
Alignment explanation
Indices: 65997752--65997784 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65997742 ATAAATTTTT
*
65997752 ATTTTTTTAATAGTTAA
1 ATTTTTTAAATAGTTAA
65997769 ATTTTTTAAATA-TTAA
1 ATTTTTTAAATAGTTAA
65997785 TATAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTTTAAATAGTTAA
Found at i:65997792 original size:22 final size:23
Alignment explanation
Indices: 65997758--65997805 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
65997748 TTTTATTTTT
*
65997758 TTAATAGTTAAATT-TTTTAAATA
1 TTAATAGTAAAATTATTTTAAA-A
65997781 TTAATA-TAAAATTATTTTAAAA
1 TTAATAGTAAAATTATTTTAAAA
65997803 TTA
1 TTA
65997806 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATAGTAAAATTATTTTAAAA
Found at i:66000622 original size:31 final size:31
Alignment explanation
Indices: 66000586--66000664 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
66000576 TTTAACGGTT
*
66000586 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
66000617 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
66000648 ATTAGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
66000665 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:66000954 original size:26 final size:26
Alignment explanation
Indices: 66000870--66001063 Score: 243
Period size: 26 Copynumber: 7.3 Consensus size: 26
66000860 CTGGAGGCCT
*
66000870 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
66000894 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
66000919 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
66000945 AGCCCTTTTCGATAAACTGGGGCATAA
1 AGCCCTTTTCAATAAACTGGGGCAT-A
*
66000972 GCTTATGCCCTTTTCAATAAACTAGGGCATA
1 ----A-GCCCTTTTCAATAAACTGGGGCATA
**
66001003 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
66001029 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
66001055 AGCCCTTTT
1 AGCCCTTTT
66001064 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.03
24 6 0.04
25 33 0.22
26 80 0.53
27 2 0.01
31 2 0.01
32 22 0.15
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:66001010 original size:58 final size:52
Alignment explanation
Indices: 66000870--66001063 Score: 270
Period size: 58 Copynumber: 3.7 Consensus size: 52
66000860 CTGGAGGCCT
*
66000870 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGATAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATA
66000919 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAT-A
* *
66000972 GCTTATGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 ----A-GCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATA
66001029 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
66001064 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 4, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
48 5 0.04
49 7 0.05
50 9 0.07
51 25 0.19
52 33 0.25
53 2 0.02
57 2 0.02
58 48 0.37
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATA
Found at i:66001035 original size:84 final size:83
Alignment explanation
Indices: 66000895--66001057 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 83
66000885 CTAGGGCAAA
* * *
66000895 GCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGATAA
1 GCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAA
66000960 ACTGGGGCATAAGCTTAT
66 ACTGGGGCATAAGCTTAT
**
66000978 GCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 GCCCTTTTCAATAAACTAGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATA
66001043 AACTGGGGCATAAGC
65 AACTGGGGCATAAGC
66001058 CCTTTTGCAC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
83 21 0.28
84 53 0.72
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (83 bp):
GCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAA
ACTGGGGCATAAGCTTAT
Found at i:66001118 original size:16 final size:16
Alignment explanation
Indices: 66001097--66001127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66001087 ACCCAACCTA
*
66001097 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
66001113 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
66001128 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:66001880 original size:26 final size:27
Alignment explanation
Indices: 66001847--66001933 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
66001837 TCATATGGAA
*
66001847 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGCA-ATTACGGTCACTTTAC
*
66001872 CATACAGGGGAATTACGGTCACTTTAC
1 CATACAGGGCAATTACGGTCACTTTAC
* * *
66001899 CCTACAGGGGC-TTTACGGTCTCTTTAC
1 CATACA-GGGCAATTACGGTCACTTTAC
*
66001926 CCTACAGG
1 CATACAGG
66001934 AGCTTTACGG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.13
26 8 0.15
27 34 0.65
28 3 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (27 bp):
CATACAGGGCAATTACGGTCACTTTAC
Found at i:66001892 original size:27 final size:27
Alignment explanation
Indices: 66001862--66001953 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
66001852 GGGCATATTC
* **
66001862 GTCATTTTACCATACAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
66001889 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
66001916 GTC-TCTTTACCCTACAGGAGCTTTACG
1 GTCAT-TTTACCCTACAGGGGCTTTACG
*
66001943 GTCTTTTTACC
1 GTCATTTTACC
66001954 TAATAGGGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:66002037 original size:27 final size:27
Alignment explanation
Indices: 66001984--66002438 Score: 265
Period size: 27 Copynumber: 16.8 Consensus size: 27
66001974 TTTCATCCTA
* * * * *
66001984 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
66002011 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** *
66002038 CAAGGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-T
* * *
66002067 TAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
* *
66002094 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
66002121 TGAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
66002148 C-AGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
66002174 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTATAAAT
** * *
66002202 TGAGGGTATTTCT-GTAATTTTACAAAC
1 CAAGGGTATTT-TGGTAATTTTATAAAT
* * * *
66002229 CAATGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
66002255 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* *
66002282 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
66002309 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** * * *
66002336 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
***** *
66002363 CAAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* **** *
66002390 CGAGGGTAAAACGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
66002417 CAAGGGTACTTTGGTAATTTTA
1 CAAGGGTATTTTGGTAATTTTA
66002439 CAATTTGAGG
Statistics
Matches: 346, Mismatches: 69, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
26 25 0.07
27 293 0.85
28 15 0.04
29 13 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:66002192 original size:81 final size:81
Alignment explanation
Indices: 66002095--66002276 Score: 294
Period size: 81 Copynumber: 2.3 Consensus size: 81
66002085 TTTGTAAATC
* *
66002095 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAATCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTT
* *
66002160 GGTAATTTTACAAACT
66 AGCAATTTTACAAACT
* * *
66002176 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAATGGTATTTT
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTT
66002241 AGCAATTTTACAAACT
66 AGCAATTTTACAAACT
66002257 A-GGGTATTTTGGTAATTTTA
1 AGGGGTATTTTGGTAATTTTA
66002277 CTGATCAAGG
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 19 0.20
81 75 0.80
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTT
AGCAATTTTACAAACT
Found at i:66016461 original size:46 final size:48
Alignment explanation
Indices: 66016390--66016523 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
66016380 GGGATATTTG
66016390 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
66016437 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
66016483 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66016524 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:66022871 original size:29 final size:29
Alignment explanation
Indices: 66022838--66022906 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
66022828 AGCATGAATG
66022838 TGAATGTGATTTGGGCCTAATGAGCCATA
1 TGAATGTGATTTGGGCCTAATGAGCCATA
* *
66022867 TGAATGTGATTTGGGCCTAATGGGCTATA
1 TGAATGTGATTTGGGCCTAATGAGCCATA
*
66022896 TGAATGAGATT
1 TGAATGTGATT
66022907 GGATGTAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.33
Consensus pattern (29 bp):
TGAATGTGATTTGGGCCTAATGAGCCATA
Found at i:66030604 original size:14 final size:14
Alignment explanation
Indices: 66030559--66030619 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
66030549 AACAAAATTG
66030559 AAATGAAAATAAAAA
1 AAAT-AAAATAAAAA
* *
66030574 TCAAA-AGAATAAGAA
1 --AAATAAAATAAAAA
66030589 AAATAAAATAAAAA
1 AAATAAAATAAAAA
66030603 AAACT-AAATAAAAA
1 AAA-TAAAATAAAAA
66030617 AAA
1 AAA
66030620 CAGGAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 3 0.08
14 23 0.61
15 9 0.24
17 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:66030620 original size:14 final size:15
Alignment explanation
Indices: 66030581--66030620 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
66030571 AAATCAAAAG
*
66030581 AATAAGAAAAA-TAA
1 AATAAAAAAAACTAA
66030595 AATAAAAAAAACT-A
1 AATAAAAAAAACTAA
66030609 AATAAAAAAAAC
1 AATAAAAAAAAC
66030621 AGGAGGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 23 0.96
15 1 0.04
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (15 bp):
AATAAAAAAAACTAA
Found at i:66037601 original size:46 final size:46
Alignment explanation
Indices: 66037548--66037723 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
66037538 TATTTGGGCA
66037548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
66037594 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
66037641 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
66037687 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66037724 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:66037703 original size:93 final size:93
Alignment explanation
Indices: 66037544--66037715 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66037534 GGGATATTTG
* *
66037544 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66037609 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
66037637 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66037702 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
66037716 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:66040711 original size:15 final size:15
Alignment explanation
Indices: 66040672--66040751 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
66040662 GTATCTTGGG
*
66040672 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
66040687 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
66040702 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
66040717 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
66040732 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
66040746 TTTCTT
1 TTTCTT
66040752 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:66040741 original size:30 final size:30
Alignment explanation
Indices: 66040663--66040750 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
66040653 CATAGTATCG
* * *
66040663 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
66040693 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
66040723 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
66040751 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:66043181 original size:46 final size:46
Alignment explanation
Indices: 66043131--66043306 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
66043121 TATTTGGGCA
66043131 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
66043177 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
66043224 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
66043270 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66043307 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:66043286 original size:93 final size:93
Alignment explanation
Indices: 66043127--66043298 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66043117 TGGATATTTG
* *
66043127 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66043192 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
66043220 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66043285 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
66043299 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:66048005 original size:22 final size:20
Alignment explanation
Indices: 66047958--66048005 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
66047948 AAATGGACTA
*
66047958 AAAAATTGATGACATGAATT
1 AAAAATTGATAACATGAATT
* *
66047978 GAAAATTGTTAACATGGAAGTT
1 AAAAATTGATAACAT-GAA-TT
66048000 AAAAAT
1 AAAAAT
66048006 CTTTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (20 bp):
AAAAATTGATAACATGAATT
Found at i:66049983 original size:13 final size:13
Alignment explanation
Indices: 66049965--66050000 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
66049955 TTCCACATTG
66049965 TATTAATTATTTT
1 TATTAATTATTTT
66049978 TATTAATTA-TTT
1 TATTAATTATTTT
*
66049990 TCTTAATTATT
1 TATTAATTATT
66050001 GCTTATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTAATTATTTT
Found at i:66055019 original size:8 final size:7
Alignment explanation
Indices: 66054991--66055042 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
66054981 GGTTTTCTCC
66054991 AAAATG-
1 AAAATGA
66054997 AAAAT-A
1 AAAATGA
66055003 AAAATGA
1 AAAATGA
*
66055010 AAAATGG
1 AAAATGA
66055017 AAAAT-A
1 AAAATGA
66055023 AAAATG-
1 AAAATGA
*
66055029 -ATATGA
1 AAAATGA
66055035 AAAATGA
1 AAAATGA
66055042 A
1 A
66055043 TATATTCTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
5 4 0.11
6 15 0.41
7 18 0.49
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.17
Consensus pattern (7 bp):
AAAATGA
Found at i:66055021 original size:20 final size:19
Alignment explanation
Indices: 66054991--66055029 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
66054981 GGTTTTCTCC
66054991 AAAATGAAAATAAAAATGA
1 AAAATGAAAATAAAAATGA
66055010 AAAATGGAAAATAAAAATGA
1 AAAAT-GAAAATAAAAATGA
66055030 TATGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATGAAAATAAAAATGA
Found at i:66065216 original size:28 final size:28
Alignment explanation
Indices: 66065147--66065247 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
66065137 GACAAGATTG
* * * *
66065147 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
66065177 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
66065205 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
66065234 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66065248 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:66069080 original size:68 final size:69
Alignment explanation
Indices: 66069008--66069183 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 69
66068998 CATCATGTGT
** * * **
66069008 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGAT-AC-AG-GATGTATTCC
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATCACAAGTGAAGGACACC
*
66069070 ATGTAG
64 ATGCAG
* * *
66069076 ACAAGAGAGCTACAGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATCCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGATCACAAGTGAAGGACACC
66069141 ATGCAG
64 ATGCAG
*
66069147 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
66069184 CGTGGTACTA
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
66 13 0.14
67 6 0.07
68 34 0.37
69 7 0.08
70 7 0.08
71 24 0.26
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATCACAAGTGAAGGACACCAT
GCAG
Found at i:66070028 original size:25 final size:25
Alignment explanation
Indices: 66069999--66070049 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
66069989 AAAGTGGAGT
66069999 AAATAGTAAAATTAAAAGTAGATAC
1 AAATAGTAAAATTAAAAGTAGATAC
*
66070024 AAATAGTGAAATTAAAAGTAGATAC
1 AAATAGTAAAATTAAAAGTAGATAC
66070049 A
1 A
66070050 CTTGAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.14, T:0.24
Consensus pattern (25 bp):
AAATAGTAAAATTAAAAGTAGATAC
Found at i:66070846 original size:21 final size:23
Alignment explanation
Indices: 66070803--66070846 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
66070793 TTTAACCCCC
*
66070803 ATGGTGTGATGAGATGGTCGGAG
1 ATGGTGTGATGAGATGATCGGAG
*
66070826 ATGGTGTG-T-AGATGATGGGAG
1 ATGGTGTGATGAGATGATCGGAG
66070847 TAGGATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.23, C:0.02, G:0.48, T:0.27
Consensus pattern (23 bp):
ATGGTGTGATGAGATGATCGGAG
Found at i:66086687 original size:28 final size:27
Alignment explanation
Indices: 66086624--66086693 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
66086614 ATAGTGAGTC
66086624 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
66086651 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
66086679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66086694 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:66093360 original size:79 final size:82
Alignment explanation
Indices: 66093220--66093404 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
66093210 TCGAATGATG
* * *
66093220 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
66093284 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
66093300 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
66093362 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
66093380 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66093405 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:66093412 original size:40 final size:40
Alignment explanation
Indices: 66093221--66093412 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
66093211 CGAATGATGT
* * * * *
66093221 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
66093261 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
66093301 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
66093340 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
66093380 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
66093413 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:66093435 original size:79 final size:79
Alignment explanation
Indices: 66093220--66093437 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
66093210 TCGAATGATG
* * * * ** *
66093220 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
66093283 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
66093300 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
66093365 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
66093380 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
66093438 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:66100918 original size:40 final size:40
Alignment explanation
Indices: 66100859--66101000 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
66100849 AAATTGAATG
* * *
66100859 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
66100899 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
66100939 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
66100979 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
66101001 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:66101001 original size:40 final size:39
Alignment explanation
Indices: 66100898--66101026 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
66100888 TGCTGGAAAT
* * *
66100898 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
66100938 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
66100978 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
66101018 TATATCCGG
1 TATATCCGG
66101027 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:66104492 original size:79 final size:82
Alignment explanation
Indices: 66104352--66104536 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
66104342 TCGAATGATG
* * *
66104352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
66104416 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
66104432 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
66104494 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
66104512 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66104537 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:66104544 original size:40 final size:40
Alignment explanation
Indices: 66104353--66104544 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
66104343 CGAATGATGT
* * * * *
66104353 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
66104393 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
66104433 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
66104472 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
66104512 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
66104545 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:66104567 original size:79 final size:79
Alignment explanation
Indices: 66104352--66104569 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
66104342 TCGAATGATG
* * * * ** *
66104352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
66104415 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
66104432 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
66104497 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
66104512 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
66104570 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:66113705 original size:21 final size:21
Alignment explanation
Indices: 66113657--66113697 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66113647 GTCTTTAGGG
* *
66113657 GTATGGCATGACATCCTCAGC
1 GTATGTCACGACATCCTCAGC
66113678 GTATGTCACGACATCCTCAG
1 GTATGTCACGACATCCTCAG
66113698 GTTGTGTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (21 bp):
GTATGTCACGACATCCTCAGC
Found at i:66115447 original size:39 final size:40
Alignment explanation
Indices: 66115320--66115496 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
66115310 CCCAAGTACA
* *
66115320 TTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCC
*
66115359 TTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
*
66115399 TTCGGGACTTAGCCCAGATATAGTCACTAGCAC-AATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
*
66115438 TTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
66115478 TTCGGGACTTAGCCCGGAT
1 TTCGGGACTTAGCCCGGAT
66115497 GTCATCCGAA
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 48 0.38
40 78 0.61
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
Found at i:66115451 original size:79 final size:80
Alignment explanation
Indices: 66115320--66115492 Score: 271
Period size: 79 Copynumber: 2.2 Consensus size: 80
66115310 CCCAAGTACA
* * * *
66115320 TTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
1 TTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTC
66115384 AATAGCACAAATGCC
66 AATAGCACAAATGCC
66115399 TTCGGGACTTAGCCCAGATATAGTC-ACTAGCAC-AATGCCTTCAGGACTTAGCCCGGATATAGT
1 TTCGGGACTTAGCCCAGATATAG-CAACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGT
*
66115462 CACTAGCACAAATGCC
65 CAATAGCACAAATGCC
66115478 TTCGGGACTTAGCCC
1 TTCGGGACTTAGCCC
66115493 GGATGTCATC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
79 70 0.80
80 16 0.18
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
TTCGGGACTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTC
AATAGCACAAATGCC
Found at i:66126522 original size:12 final size:12
Alignment explanation
Indices: 66126505--66126530 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66126495 CTTTACGCTT
66126505 AGTAAGTTCATA
1 AGTAAGTTCATA
66126517 AGTAAGTTCATA
1 AGTAAGTTCATA
66126529 AG
1 AG
66126531 AAAACAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (12 bp):
AGTAAGTTCATA
Found at i:66129455 original size:75 final size:75
Alignment explanation
Indices: 66129332--66129482 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
66129322 CCCTCTAGGC
66129332 CCAATTTAAACATTAGAATCAAGTCGAGACTAAATCGGGATTGTAGAGAATTTTTCGCAAAATTT
1 CCAATTTAAACATTAGAATCAAGTCGAGACTAAATCGGGATTGTAGAGAATTTTTCGCAAAATTT
66129397 TAAAAATTTT
66 TAAAAATTTT
66129407 CCAATTTAAACATTAGAATCAAGTCGAGACTAAATCGGGATTGTAGAGAATTTTTCGCAAAATTT
1 CCAATTTAAACATTAGAATCAAGTCGAGACTAAATCGGGATTGTAGAGAATTTTTCGCAAAATTT
66129472 TAAAAATTTT
66 TAAAAATTTT
66129482 C
1 C
66129483 TTTAATACAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (75 bp):
CCAATTTAAACATTAGAATCAAGTCGAGACTAAATCGGGATTGTAGAGAATTTTTCGCAAAATTT
TAAAAATTTT
Found at i:66133583 original size:29 final size:29
Alignment explanation
Indices: 66133521--66133623 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
66133511 GTGACGAGAT
* * *
66133521 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
66133550 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
66133579 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
66133608 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66133624 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:66141554 original size:29 final size:29
Alignment explanation
Indices: 66141492--66141594 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
66141482 GTGACGAGAT
* * *
66141492 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
66141521 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
66141550 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
66141579 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66141595 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:66146497 original size:20 final size:21
Alignment explanation
Indices: 66146468--66146520 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
66146458 AAAATGCATG
*
66146468 TATATATATTATATATT-ATA
1 TATATATATTATACATTAATA
*
66146488 TATATGTATTA-ACATTAATA
1 TATATATATTATACATTAATA
* *
66146508 TAAATTTATTATA
1 TATATATATTATA
66146521 ATAATAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 22 0.81
21 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATATATATTATACATTAATA
Found at i:66146612 original size:11 final size:10
Alignment explanation
Indices: 66146585--66146615 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
66146575 ATGAAAAATT
66146585 AAGAAAGAAA
1 AAGAAAGAAA
66146595 AAGAAAGAAA
1 AAGAAAGAAA
66146605 AAGCAAAGAAA
1 AAG-AAAGAAA
66146616 GGGAGAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:66147355 original size:25 final size:25
Alignment explanation
Indices: 66147307--66147355 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
66147297 CATAATTGAA
* * *
66147307 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
66147332 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
66147356 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:66152189 original size:27 final size:27
Alignment explanation
Indices: 66152154--66152265 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
66152144 AGCACGGCTG
*
66152154 CCAGAACAGATAAT-GTGACAGAGTCA
1 CCAGAACAGATAATCGTGACAGAGCCA
*
66152180 CTAGATACAGATAATCGTGACAGAGCCA
1 CCAGA-ACAGATAATCGTGACAGAGCCA
* * *
66152208 CCAGAACAGAAATATC-TGGCAGTGCCA
1 CCAGAACAGATA-ATCGTGACAGAGCCA
* * * *
66152235 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATCGTGACAGAGCCA
66152262 CCAG
1 CCAG
66152266 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 47 0.66
28 18 0.25
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGACAGAGCCA
Found at i:66159358 original size:40 final size:40
Alignment explanation
Indices: 66159284--66159529 Score: 397
Period size: 40 Copynumber: 6.2 Consensus size: 40
66159274 AACCCAAGTA
* *
66159284 CCTTCGGGATTTAG-CCGGATATAA-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
66159323 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* * *
66159363 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
66159403 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
66159443 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* *
66159483 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
66159523 CCTTCGG
1 CCTTCGG
66159530 ATCTTAGTCC
Statistics
Matches: 195, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.07
40 181 0.93
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:66161630 original size:28 final size:28
Alignment explanation
Indices: 66161588--66161686 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
66161578 GCAATAAGCC
* *
66161588 CGCACACTTAATGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
66161616 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
66161644 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
66161673 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66161687 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.03
28 39 0.66
29 17 0.29
30 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:66163811 original size:13 final size:13
Alignment explanation
Indices: 66163793--66163818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66163783 ATTTTTATTT
66163793 TTAACATAAAATA
1 TTAACATAAAATA
66163806 TTAACATAAAATA
1 TTAACATAAAATA
66163819 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:66166287 original size:27 final size:27
Alignment explanation
Indices: 66166231--66166341 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
66166221 AGCATGGCTG
* *
66166231 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
66166257 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
66166284 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
66166311 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
66166338 CCAG
1 CCAG
66166342 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 57 0.75
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:66171596 original size:46 final size:45
Alignment explanation
Indices: 66171536--66171800 Score: 330
Period size: 46 Copynumber: 6.0 Consensus size: 45
66171526 TTTGACATGA
* * * * * *
66171536 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
66171582 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
66171628 TGCCATGGTATCTTTCAA-CATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
66171673 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
66171719 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
66171757 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
66171801 AGAGCACACT
Statistics
Matches: 195, Mismatches: 13, Indels: 22
0.85 0.06 0.10
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 45 0.23
46 106 0.54
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:66171655 original size:91 final size:88
Alignment explanation
Indices: 66171536--66171799 Score: 349
Period size: 91 Copynumber: 3.0 Consensus size: 88
66171526 TTTGACATGA
* * *
66171536 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAAC-ATGGTCTTAC-CA-TTTCT-TCAGGTTGCCATGGTATCTTTCAAC
***
66171601 CATGGTCTTGTTCATTTCATATCACGT
62 CATGGTCTTACACATTTCATATCACGT
66171628 TGCCATGGTATCTTTCAACATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACATGGTCTTAC-CATTTC-T-TCAGGTTGCCATGGTATCTTTCAACC
* *
66171693 ATGGTCTTACACATTTTATATCAGGT
63 ATGGTCTTACACATTTCATATCACGT
66171719 TGCCATGGTATCTTTCAACCATGGTCTTA-CA---C-TCAGGTTGCCATGGTATCTTTCAACCAT
1 TGCCATGGTATCTTTCAA-CATGGTCTTACCATTTCTTCAGGTTGCCATGGTATCTTTCAACCAT
66171779 GGTCTTACACATTTCATATCA
65 GGTCTTACACATTTCATATCA
66171800 GAGAGCACAC
Statistics
Matches: 159, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
84 48 0.30
87 1 0.01
90 6 0.04
91 77 0.48
92 27 0.17
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACATGGTCTTACCATTTCTTCAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCACGT
Found at i:66171764 original size:38 final size:38
Alignment explanation
Indices: 66171713--66171788 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
66171703 ACATTTTATA
66171713 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
66171751 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
66171789 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:66173945 original size:11 final size:11
Alignment explanation
Indices: 66173929--66173980 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
66173919 TATACTAAAT
66173929 AAATAATAATA
1 AAATAATAATA
*
66173940 AAATAAT-ATT
1 AAATAATAATA
* *
66173950 AAATATCTCATA
1 AAATA-ATAATA
*
66173962 AAATATTAATA
1 AAATAATAATA
66173973 AAATAATA
1 AAATAATA
66173981 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:66183934 original size:46 final size:46
Alignment explanation
Indices: 66183869--66184188 Score: 451
Period size: 46 Copynumber: 7.0 Consensus size: 46
66183859 TTATCTTTGA
* * * * * *
66183869 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
66183915 CATGTTGCCATGGTATCTTTCAACCATGGTTTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
66183961 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
66184007 CATGTTGCCTTGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
66184053 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** *
66184099 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * **
66184145 CATGTTGCCATGGTATCTTCCAACCACGATCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
66184189 TTCAGAAAGC
Statistics
Matches: 250, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 250 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:66189300 original size:46 final size:46
Alignment explanation
Indices: 66189235--66189554 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
66189225 TTATCTTTGA
* * * * *
66189235 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** *
66189281 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
66189327 CACGTTGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CATGT
* **
66189373 CATGTTGCCATGGTATCTTTCAATCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * *
66189419 CACGTTGCCATGGTATCTTTTAACCATGGTCTTACACATGTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
66189465 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
66189511 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
66189555 TTCAGAAAGC
Statistics
Matches: 244, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
45 2 0.01
46 241 0.99
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:66189506 original size:21 final size:21
Alignment explanation
Indices: 66189482--66189553 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
66189472 CCATGGTATC
66189482 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* *
66189503 TTTCATATCATGTTGTCATGGTA-TC-
1 TTTCA-ACCATG--GTC-T--TACACA
66189528 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
66189549 TTTCA
1 TTTCA
66189554 TTTCAGAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:66193285 original size:5 final size:5
Alignment explanation
Indices: 66193277--66193301 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66193267 AAAATAAAAA
66193277 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
66193302 GGTTGGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:66195353 original size:30 final size:31
Alignment explanation
Indices: 66195297--66195359 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
66195287 CCTTTTCATA
66195297 TTTCATATTTCATGACACTGGGCCGAAGCCT
1 TTTCATATTTCATGACACTGGGCCGAAGCCT
*
66195328 TTTCATATTTCAT-ATTACT-GGCCGAAGCCT
1 TTTCATATTTCATGA-CACTGGGCCGAAGCCT
66195358 TT
1 TT
66195360 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATGACACTGGGCCGAAGCCT
Found at i:66195604 original size:24 final size:24
Alignment explanation
Indices: 66195551--66195692 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
66195541 GCTTTATCGT
*
66195551 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
66195576 GTAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66195600 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66195623 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66195646 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66195670 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66195693 GTACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 46 0.42
24 53 0.48
25 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:66195626 original size:23 final size:23
Alignment explanation
Indices: 66195572--66195691 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
66195562 CCTAGCCTCT
* *
66195572 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
66195595 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
66195619 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
66195642 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
66195665 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
66195689 TTT
1 TTT
66195692 TGTACTTCCT
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
23 49 0.53
24 44 0.47
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:66195631 original size:47 final size:48
Alignment explanation
Indices: 66195551--66195692 Score: 218
Period size: 47 Copynumber: 3.0 Consensus size: 48
66195541 GCTTTATCGT
* * *
66195551 ATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
66195600 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
66195646 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
66195693 GTACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 23 0.26
47 44 0.51
48 8 0.09
49 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:66195764 original size:9 final size:9
Alignment explanation
Indices: 66195750--66195802 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
66195740 ACATCATGTG
66195750 CATATCATA
1 CATATCATA
*
66195759 CATATCATGTG
1 CATATCA--TA
66195770 CATATCATA
1 CATATCATA
*
66195779 CATGTCATGTA
1 CATATCA--TA
66195790 CATATCATA
1 CATATCATA
66195799 CATA
1 CATA
66195803 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:66195767 original size:20 final size:20
Alignment explanation
Indices: 66195742--66195808 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
66195732 TTATGAATAC
66195742 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
66195762 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
66195782 GTCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
*
66195802 ACCATGT
1 ATCATGT
66195809 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:66195791 original size:11 final size:11
Alignment explanation
Indices: 66195742--66195797 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
66195732 TTATGAATAC
*
66195742 ATCATGTGCAT
1 ATCATGTACAT
66195753 ATCA--TACAT
1 ATCATGTACAT
*
66195762 ATCATGTGCAT
1 ATCATGTACAT
66195773 ATCA--TACAT
1 ATCATGTACAT
*
66195782 GTCATGTACAT
1 ATCATGTACAT
66195793 ATCAT
1 ATCAT
66195798 ACATACCATG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:66195887 original size:25 final size:25
Alignment explanation
Indices: 66195845--66195892 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66195835 ATATTTAAAC
* * *
66195845 CCTAGCGGTATAATGGTCATTTTTA
1 CCTAGCGGCAAAACGGTCATTTTTA
66195870 CCTAGCGGCAAAACGGTCATTTT
1 CCTAGCGGCAAAACGGTCATTTT
66195893 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGCGGCAAAACGGTCATTTTTA
Found at i:66200857 original size:119 final size:120
Alignment explanation
Indices: 66200679--66200897 Score: 266
Period size: 119 Copynumber: 1.8 Consensus size: 120
66200669 CGTTCAAACT
* ** *
66200679 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCGTAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
* *
66200744 TAAC-TCGCATAAAGGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACAAATG
66 TAACTTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* * **
66200799 CCTTCGGG-CTTAGCCCGAGAT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTCCGGATAT
1 CCTTCGGGACATAGCCCG-GATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* * *
66200861 AGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 AGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGA
66200898 CATCATTCGA
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
118 3 0.04
119 63 0.76
120 17 0.20
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (120 bp):
CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:66200891 original size:40 final size:40
Alignment explanation
Indices: 66200679--66200897 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
66200669 CGTTCAAACT
* **
66200679 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCGTAAATG
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATG
* * *
66200719 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAGG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
* *
66200759 CCTTCAGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
66200799 CCTTCGGG-CTTAGCCCGAGA-TTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCG-GATTTAGTAACTCGCACAAATG
* * * * *
66200838 CCTT-TGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATG
66200878 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
66200898 CATCATTCGA
Statistics
Matches: 156, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.21
40 108 0.69
41 13 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
Found at i:66202839 original size:79 final size:80
Alignment explanation
Indices: 66202696--66202903 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
66202686 ACCTTCGGAG
* * ** * * * *
66202696 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
66202760 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
66202775 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
66202837 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
66202854 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
66202904 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:66202848 original size:40 final size:40
Alignment explanation
Indices: 66202796--66202903 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
66202786 TATCACGATT
** *
66202796 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
66202836 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
66202876 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
66202904 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:66212307 original size:40 final size:39
Alignment explanation
Indices: 66212172--66212313 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 39
66212162 CCCGATTCGT
*
66212172 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCACA
66212212 AATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACA
* * *
66212250 AATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCACA
66212291 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
66212314 CATCATTCGA
Statistics
Matches: 92, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
37 2 0.02
38 24 0.26
39 21 0.23
40 34 0.37
41 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACA
Found at i:66218197 original size:7 final size:7
Alignment explanation
Indices: 66218185--66218212 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
66218175 CCGTAGCCCT
66218185 TTTCATA
1 TTTCATA
66218192 TTTCATA
1 TTTCATA
66218199 TTTCATA
1 TTTCATA
66218206 TTTCATA
1 TTTCATA
66218213 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:66218255 original size:30 final size:31
Alignment explanation
Indices: 66218199--66218261 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
66218189 ATATTTCATA
66218199 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
66218230 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
66218260 TT
1 TT
66218262 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:66218506 original size:24 final size:24
Alignment explanation
Indices: 66218453--66218595 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
66218443 GCTTTATCGT
*
66218453 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
66218478 GTAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
66218502 ATAACTGAGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66218526 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66218549 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
66218573 ATAACTGGGGTATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66218596 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 23 0.21
24 74 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:66218567 original size:47 final size:47
Alignment explanation
Indices: 66218453--66218594 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
66218443 GCTTTATCGT
* * *
66218453 ATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTA
*
66218502 ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
66218549 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGTATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
66218595 TGCACTTCCT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 48 0.56
48 27 0.31
49 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:66218670 original size:20 final size:20
Alignment explanation
Indices: 66218645--66218711 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
66218635 TTATGAATAC
66218645 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
66218665 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
66218685 GTCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
*
66218705 ACCATGT
1 ATCATGT
66218712 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:66219886 original size:12 final size:12
Alignment explanation
Indices: 66219855--66219893 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
66219845 TGGGCTGGTT
66219855 TGAAAGAAAGAGA
1 TGAAAGAAA-AGA
*
66219868 AGAAAGAAAAGA
1 TGAAAGAAAAGA
*
66219880 TGAAAGAAGAGA
1 TGAAAGAAAAGA
66219892 TG
1 TG
66219894 GTAGATTCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (12 bp):
TGAAAGAAAAGA
Found at i:66223634 original size:27 final size:28
Alignment explanation
Indices: 66223597--66223666 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
66223587 ATAGTGATTC
66223597 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66223624 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
66223652 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66223667 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66225833 original size:68 final size:67
Alignment explanation
Indices: 66225761--66225910 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
66225751 CATCATGTGT
* * * *
66225761 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
66225823 ATGTAG
62 ATGTAG
** * *
66225829 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
66225894 AG
66 AG
66225896 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
66225911 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:66225866 original size:64 final size:64
Alignment explanation
Indices: 66225785--66225968 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
66225775 AGACATTATG
* *
66225785 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
66225849 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
66225914 AA
63 AA
* * * *
66225916 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
66225969 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:66227062 original size:2 final size:2
Alignment explanation
Indices: 66227055--66227085 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66227045 TCATGACATG
66227055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66227086 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66229161 original size:29 final size:28
Alignment explanation
Indices: 66229116--66229175 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
66229106 TTTTTTGACA
* *
66229116 AAAAATGTCAATTAGGGATTAATTTGAG
1 AAAAATGTAAATTAGGGATTAAATTGAG
* * *
66229144 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGTAAATT-AGGGATTAAATTGAG
66229173 AAA
1 AAA
66229176 TAAATGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (28 bp):
AAAAATGTAAATTAGGGATTAAATTGAG
Found at i:66229651 original size:40 final size:40
Alignment explanation
Indices: 66229586--66229697 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
66229576 GACTATTTTG
*
66229586 GCACTTAGTGTGCGTTTCGAGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCGTTTCGAGATAGCTTCAGCTATATATA
* * *
66229626 GCACTTAGTGTGC-TAATTGGA-ATAGCTTCAGCTATATGTG
1 GCACTTAGTGTGCGT--TTCGAGATAGCTTCAGCTATATATA
* * * *
66229666 GCACTAAGTGTACGATACTGAGATAGCTTCAG
1 GCACTTAGTGTGCGTTTC-GAGATAGCTTCAG
66229698 TTTAATGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
39 2 0.03
40 42 0.72
41 14 0.24
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGTTTCGAGATAGCTTCAGCTATATATA
Found at i:66232662 original size:24 final size:24
Alignment explanation
Indices: 66232635--66232680 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
66232625 GGGCATACTT
66232635 AGTTTGTCTCAGGCAATTCATATA
1 AGTTTGTCTCAGGCAATTCATATA
66232659 AGTTTGTCTCAGGCAATTCATA
1 AGTTTGTCTCAGGCAATTCATA
66232681 CCGTTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (24 bp):
AGTTTGTCTCAGGCAATTCATATA
Found at i:66236777 original size:19 final size:18
Alignment explanation
Indices: 66236755--66236791 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
66236745 AATATTTAAA
66236755 TATAAAAATATTTATATAT
1 TATAAAAATA-TTATATAT
*
66236774 TATATAAATATTATATAT
1 TATAAAAATATTATATAT
66236792 GTTTGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAAAATATTATATAT
Found at i:66240321 original size:42 final size:42
Alignment explanation
Indices: 66240219--66240371 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 42
66240209 TGTGTTATCA
* * ** * *
66240219 TATAGGACCATATTTGGGATATGGTGTTGATATGAGATTTCG
1 TATAAGACCATATTTGGGACATGGCATCGATATGAAATTTCG
* ** * *
66240261 CATAAGACCACGTATGGGACATGGCATCGAAATGAAATTTCG
1 TATAAGACCATATTTGGGACATGGCATCGATATGAAATTTCG
* * * *
66240303 TATAAGACCATATTTGGGATATGACATCGATGTGAAA--TCC
1 TATAAGACCATATTTGGGACATGGCATCGATATGAAATTTCG
* *
66240343 TATGTAAGACCATGTCTGGGACATGGCAT
1 TA--TAAGACCATATTTGGGACATGGCAT
66240372 TGGCATCTTA
Statistics
Matches: 85, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
40 4 0.05
42 81 0.95
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
TATAAGACCATATTTGGGACATGGCATCGATATGAAATTTCG
Found at i:66243097 original size:46 final size:46
Alignment explanation
Indices: 66243032--66243247 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 46
66243022 TATGTGTGCT
*
66243032 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCATGAGAGCC
* * ** * ** *
66243078 AGTGTAAGACATGTTTGGGACATGCGTTGGCCTCTAAATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC-AT-AGCA-TGAGAGCC
* *
66243126 AGTGTAAGACTTGTCTGGGACATGCATCAGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCATGAGAGCC
* * * *
66243172 AGTGTAAGACATGTCTAGGACATGCATCGGCC-TCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AG-CA-TGAGAGCC
* *
66243220 AGTGTAAGACATGTCTTGAACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
66243248 GGCATTGAGA
Statistics
Matches: 135, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 63 0.47
47 3 0.02
48 63 0.47
49 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCATGAGAGCC
Found at i:66243145 original size:48 final size:47
Alignment explanation
Indices: 66243032--66243250 Score: 196
Period size: 48 Copynumber: 4.7 Consensus size: 47
66243022 TATGTGTGCT
* ** * *
66243032 AGTGTAAGACATGTCTGGGACATGCATCAG-C-CATAGCA-TGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AATATTTA-AGCC
* * *
66243078 AGTGTAAGACATGTTTGGGACATGCGTTGGCCTCTAAATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AAATATTTAAGCC
* * * ** *
66243126 AGTGTAAGACTTGTCTGGGACATGCATCAGCCAC-AGCA-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAATATTTA-AGCC
* *
66243172 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AAATATTTAAGCC
* *
66243220 AGTGTAAGACATGTCTTGAACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
66243251 ATTGAGACAA
Statistics
Matches: 138, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 62 0.45
47 1 0.01
48 68 0.49
49 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAATATTTAAGCC
Found at i:66243193 original size:94 final size:94
Alignment explanation
Indices: 66243032--66243337 Score: 350
Period size: 94 Copynumber: 3.3 Consensus size: 94
66243022 TATGTGTGCT
* * * *
66243032 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGCATGAGAGCTAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGG
* * *
66243097 ACATGCGTTGGCCTCTAAATATTTAAGCC
66 ACATGCATCGGCCTCGAAATATTTAAGCC
*
66243126 AGTGTAAGACTTGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGG
*
66243191 ACATGCATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAAATATTTAAGCC
* * * * *
66243220 AGTGTAAGACATGTCTTGAACATGCATC-GGCATTGAGACA--AGAGCTAGTGTAAGACATGT-T
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAG-CATGAGAGCCAGTGTAAGACATGTCT
* * ** ** *
66243281 CGGTATATGCATCGGCCTCGTGATATACAAGCT
63 AGG-ACATGCATCGGCCTCGAAATATTTAAGCC
*
66243314 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
66243338 GCGTCAGCTT
Statistics
Matches: 184, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
93 6 0.03
94 174 0.95
95 2 0.01
96 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGG
ACATGCATCGGCCTCGAAATATTTAAGCC
Found at i:66245051 original size:49 final size:49
Alignment explanation
Indices: 66244977--66245102 Score: 144
Period size: 49 Copynumber: 2.6 Consensus size: 49
66244967 TGTGGTGTGT
** * *
66244977 CAGTGTAAGATTTGTTTGGGACATGGCATCAACCCCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACCCCGATAGATGAAAGC
* * * * *
66245026 CAGTGTAAGACCTGTCTGGGGCATGGCATCAGCCTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACCCCGATAGATGAAAGC
* *
66245075 CAGTGTAAGACTATGTCTAGGACATGGC
1 CAGTGTAAGAC-CTGTCTGGGACATGGC
66245103 GTCGACATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 51 0.80
50 13 0.20
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCAACCCCGATAGATGAAAGC
Found at i:66253285 original size:40 final size:40
Alignment explanation
Indices: 66253253--66253433 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
66253243 TCGTTCAAAC
* * *
66253253 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCGTAAAT
1 GCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCATAAAT
66253293 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
*
66253333 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
** * * * * *
66253373 GCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCATAAAT
*
66253413 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
66253434 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.02
40 109 0.87
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
Found at i:66256426 original size:43 final size:42
Alignment explanation
Indices: 66256379--66256461 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
66256369 GGATTTCTGA
* * *
66256379 TATCTATTTTGCAAGTAGGACCATGTCTGGGACATTGGCATTG
1 TATCTAGTTT-CAAGTAAGACCATGTCTGGGACAGTGGCATTG
* * * *
66256422 TATCTGGTTTCATGTAAGACCCTGTCTGGGATAGTGGCAT
1 TATCTAGTTTCAAGTAAGACCATGTCTGGGACAGTGGCAT
66256462 CGATGTTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
42 25 0.76
43 8 0.24
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (42 bp):
TATCTAGTTTCAAGTAAGACCATGTCTGGGACAGTGGCATTG
Found at i:66271670 original size:18 final size:19
Alignment explanation
Indices: 66271638--66271673 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
66271628 GAATTGGCCT
66271638 AATGGGCCAGAATGGGCTA
1 AATGGGCCAGAATGGGCTA
*
66271657 AATGGGCCCG-ATGGGCT
1 AATGGGCCAGAATGGGCT
66271674 GTTGGGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
AATGGGCCAGAATGGGCTA
Found at i:66271771 original size:28 final size:27
Alignment explanation
Indices: 66271739--66271883 Score: 121
Period size: 28 Copynumber: 5.1 Consensus size: 27
66271729 GTGAACATGA
66271739 ATATAATGTGATTTGGG-CTAAATGGGCC
1 ATATAATGTGA-TTGGGCCT-AATGGGCC
* * *
66271767 ATATAAAGGAGATTGGGCCTAATAGGCC
1 ATAT-AATGTGATTGGGCCTAATGGGCC
* *
66271795 ATAGGAATGTGAATTGGGCCTGATGGGCC
1 ATA-TAATGTG-ATTGGGCCTAATGGGCC
** **
66271824 ATATGAACATGATTGGGCCGGATGGGCC
1 ATAT-AATGTGATTGGGCCTAATGGGCC
* *
66271852 ATATAAATGAGATTGGGCCTAGTGGGCC
1 ATAT-AATGTGATTGGGCCTAATGGGCC
66271880 ATAT
1 ATAT
66271884 GCATGTATGC
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
28 64 0.69
29 29 0.31
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.26
Consensus pattern (27 bp):
ATATAATGTGATTGGGCCTAATGGGCC
Found at i:66271838 original size:57 final size:56
Alignment explanation
Indices: 66271743--66271884 Score: 137
Period size: 57 Copynumber: 2.5 Consensus size: 56
66271733 ACATGAATAT
* * * * *
66271743 AATGTGATTTGGG-CTAAATGGGCCATATAAAGGAGATTGGGCCTAATAGGCCATAGG
1 AATGTGAATTGGGCCT--ATGGGCCATATGAAGCAGATTGGGCCGAATAGGCCATAGA
* * *
66271800 AATGTGAATTGGGCCTGATGGGCCATATGAA-CATGATTGGGCCGGATGGGCCATATA
1 AATGTGAATTGGGCCT-ATGGGCCATATGAAGCA-GATTGGGCCGAATAGGCCATAGA
*
66271857 AATGAG-ATTGGGCCTAGTGGGCCATATG
1 AATGTGAATTGGGCCTA-TGGGCCATATG
66271885 CATGTATGCA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
55 1 0.01
56 21 0.29
57 48 0.67
58 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (56 bp):
AATGTGAATTGGGCCTATGGGCCATATGAAGCAGATTGGGCCGAATAGGCCATAGA
Found at i:66284456 original size:29 final size:29
Alignment explanation
Indices: 66284414--66284472 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
66284404 ATCGAGGCTA
66284414 AATCATATCACTCATTACTAACACTTAAC
1 AATCATATCACTCATTACTAACACTTAAC
*
66284443 AATCATATCACTCATTAGTAACACTTAAC
1 AATCATATCACTCATTACTAACACTTAAC
66284472 A
1 A
66284473 TATTTACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (29 bp):
AATCATATCACTCATTACTAACACTTAAC
Found at i:66284510 original size:15 final size:17
Alignment explanation
Indices: 66284492--66284523 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
66284482 TAGCATAATT
66284492 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
66284507 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
66284524 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:66292613 original size:22 final size:22
Alignment explanation
Indices: 66292582--66292625 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
66292572 ATTTATTAAC
*
66292582 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
66292604 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
66292626 GATCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:66295814 original size:18 final size:18
Alignment explanation
Indices: 66295791--66295825 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66295781 GCCCAAAAAT
*
66295791 CCCACATGCTTGTGTGGG
1 CCCACATGCCTGTGTGGG
66295809 CCCACATGCCTGTGTGG
1 CCCACATGCCTGTGTGG
66295826 CCAACACGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.31, G:0.31, T:0.26
Consensus pattern (18 bp):
CCCACATGCCTGTGTGGG
Found at i:66299504 original size:24 final size:24
Alignment explanation
Indices: 66299477--66299525 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
66299467 AACCCATTAC
**
66299477 AGAATAAGAAACATTATCAGAACT
1 AGAATAAGAAACAGAATCAGAACT
* *
66299501 AGAATCAGAATCAGAATCAGAACT
1 AGAATAAGAAACAGAATCAGAACT
66299525 A
1 A
66299526 AGTGACAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.18
Consensus pattern (24 bp):
AGAATAAGAAACAGAATCAGAACT
Found at i:66299510 original size:6 final size:6
Alignment explanation
Indices: 66299492--66299587 Score: 72
Period size: 6 Copynumber: 15.7 Consensus size: 6
66299482 AAGAAACATT
* * *
66299492 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ACTAAGTG A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA ATCAGA
* * *
66299541 ATCAGA ATCAGA ATCAGTA TTCGGTA A-CAGA ATCAAA ATCAGA ATCA
1 ATCAGA ATCAGA ATCAG-A ATCAG-A ATCAGA ATCAGA ATCAGA ATCA
66299588 ATATCAGGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
5 4 0.06
6 56 0.79
7 10 0.14
8 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:66299544 original size:37 final size:37
Alignment explanation
Indices: 66299503--66299587 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
66299493 TCAGAACTAG
*
66299503 AATCAGAATCAGAATCAGAACTAAGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAACTAAGTAACAGAATCAA
* * **
66299540 AATCAGAATCAGAATCAGTATTCGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAACTAAGTAACAGAATCAA
66299577 AATCAGAATCA
1 AATCAGAATCA
66299588 ATATCAGGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAACTAAGTAACAGAATCAA
Found at i:66299575 original size:31 final size:31
Alignment explanation
Indices: 66299540--66299617 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
66299530 ACAGAATCAA
* *
66299540 AATCAGAATCAGAATCAGTATTC-GGTAACAG
1 AATCAAAATCAGAATCAATA-TCAGGTAACAG
66299571 AATCAAAATCAGAATCAATATCAGGTAACAG
1 AATCAAAATCAGAATCAATATCAGGTAACAG
*
66299602 AATAAAAAATCAGAAT
1 AAT-CAAAATCAGAAT
66299618 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.05
31 29 0.69
32 11 0.26
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (31 bp):
AATCAAAATCAGAATCAATATCAGGTAACAG
Found at i:66300340 original size:27 final size:27
Alignment explanation
Indices: 66300064--66300334 Score: 380
Period size: 27 Copynumber: 10.0 Consensus size: 27
66300054 GGGGCAAAAT
* * * *
66300064 GGTAATTTTACCCGACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66300091 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66300118 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66300145 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66300172 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66300199 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66300226 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66300253 GGTAATTCTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
66300280 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
66300307 AGTAATTCTACCTTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66300334 G
1 G
66300335 ACAATTTCAC
Statistics
Matches: 217, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:66300353 original size:54 final size:54
Alignment explanation
Indices: 66300136--66300359 Score: 184
Period size: 54 Copynumber: 4.1 Consensus size: 54
66300126 TACCCTATAA
* ** * * **
66300136 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTCCGA-CAATTCTACAATACAG
** * ** * ** *
66300190 GGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCATACAG
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTCCGACAATTCTACAATACAG
* * ** **
66300244 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTCCGACAATTCTACAATACAG
* *
66300298 GGGTATTTCAGTAATTCTACCTTACAAAGGTATTTCGACAATT-TCACAA-ATCAG
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTCCGACAATTCT-ACAATA-CAG
66300352 GGGTATTT
1 GGGTATTT
66300360 TGGTAATTTT
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 148 0.99
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (54 bp):
GGGTATTTCAGTAATTCTACCCTACAAAGGTATTCCGACAATTCTACAATACAG
Found at i:66300356 original size:27 final size:27
Alignment explanation
Indices: 66300326--66300386 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
66300316 ACCTTACAAA
*
66300326 GGTATTTCGACAATTTCACAAATCAGG
1 GGTATTTCGACAATTTCACAAACCAGG
* ** *
66300353 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTCGACAATTTCACAAACCAGG
66300380 GGTATTT
1 GGTATTT
66300387 TGGTAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCGACAATTTCACAAACCAGG
Found at i:66300384 original size:54 final size:54
Alignment explanation
Indices: 66300326--66300441 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
66300316 ACCTTACAAA
*
66300326 GGTATTTCGACAATTTCACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTCGACAATTTCACAAAT-AGAGGGTATTTTGGTAATTTTACAAACCAAG
* ** * *** **
66300380 GGTATTTTGGTAATTTTATTGATAGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTCGACAATTTCACAAATAGAGGGTATTTTGGTAATTTTACAAACCAAG
66300434 GGTATTTC
1 GGTATTTC
66300442 AGTAATTTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GGTATTTCGACAATTTCACAAATAGAGGGTATTTTGGTAATTTTACAAACCAAG
Found at i:66300387 original size:27 final size:27
Alignment explanation
Indices: 66300337--66300450 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
66300327 GTATTTCGAC
* *
66300337 AATTTCACAAATCAGGGGTATTTTGGT
1 AATTTTACAAACCAGGGGTATTTTGGT
66300364 AATTTTACAAACCAGGGGTATTTTGGT
1 AATTTTACAAACCAGGGGTATTTTGGT
*** *
66300391 AATTTTATTGA-TAGAGGGTATTTTGGT
1 AATTTTACAAACCAG-GGGTATTTTGGT
** * **
66300418 AATTTTGTAAACCAAGGGTATTTCAGT
1 AATTTTACAAACCAGGGGTATTTTGGT
66300445 AATTTT
1 AATTTT
66300451 GTAAATCGAG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.03
27 69 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AATTTTACAAACCAGGGGTATTTTGGT
Found at i:66300393 original size:81 final size:81
Alignment explanation
Indices: 66300104--66300394 Score: 286
Period size: 81 Copynumber: 3.6 Consensus size: 81
66300094 AATTTTACCC
* * * * **
66300104 TACAGGGGTATTTCGGT-ATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTA
1 TACAGGGGTATTTTGGTAATTT-TACCCTACAGGGGTATTTCGGTAATTCTACCATACAAAGGTA
* **
66300168 TTTC-AGTAATTCTACCC
65 TTTCGA-CAATTCTACAA
**
66300185 TACAGGGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTAT
1 TACAGGGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCATACAAAGGTAT
** **
66300250 TTCGGTAATTCTACCC
66 TTCGACAATTCTACAA
* ** * * *
66300266 TACAAGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAAAGGTAT
1 TACAGGGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCATACAAAGGTAT
66300331 TTCGACAATT-TCACAA
66 TTCGACAATTCT-ACAA
** *
66300347 -ATCAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 TA-CAGGGGTATTTTGGTAATTTTACCCTA-CAGGGGTATTTCGGTAATT
66300395 TTATTGATAG
Statistics
Matches: 180, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
80 4 0.02
81 172 0.96
82 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (81 bp):
TACAGGGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCATACAAAGGTAT
TTCGACAATTCTACAA
Found at i:66300451 original size:27 final size:27
Alignment explanation
Indices: 66300405--66300464 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
66300395 TTATTGATAG
**
66300405 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
* *
66300432 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAACCA
66300459 AGGGTA
1 AGGGTA
66300465 AAATGGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:66300462 original size:54 final size:54
Alignment explanation
Indices: 66300352--66300491 Score: 145
Period size: 54 Copynumber: 2.6 Consensus size: 54
66300342 CACAAATCAG
** * ** **
66300352 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGATAGA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATAGA
* *
66300406 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATAGA
*** * * *
66300460 GGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTA
66300492 AGATGGTAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATAGA
Found at i:66300473 original size:27 final size:27
Alignment explanation
Indices: 66300443--66300636 Score: 309
Period size: 27 Copynumber: 7.2 Consensus size: 27
66300433 GGGTATTTCA
*
66300443 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
66300470 GTAATTCTGTAAATCGAGGGTAAGATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
66300497 GTAATTCTATAAATCGAGGGT-AAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
66300523 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
66300550 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
66300577 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
66300604 GTAATTCTGTAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
66300631 GTAATT
1 GTAATT
66300637 TTACAAATTG
Statistics
Matches: 154, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 24 0.16
27 130 0.84
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:66300555 original size:80 final size:81
Alignment explanation
Indices: 66300443--66300636 Score: 327
Period size: 80 Copynumber: 2.4 Consensus size: 81
66300433 GGGTATTTCA
* *
66300443 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
*
66300508 AATCGAGGGT-AAATG
66 AATCGAGGGTAAAACG
* *
66300523 GTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
66300588 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
*
66300604 GTAATTCTGTAAATCGAAGGTAAAATGGTAATT
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATT
66300637 TTACAAATTG
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 71 0.68
81 34 0.32
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:66305098 original size:41 final size:40
Alignment explanation
Indices: 66305053--66305141 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 40
66305043 CTGAACCCAT
* * * *
66305053 TACAGAATCAGATACAAATTAAGGCCTTAGCCCAGCTCAGA
1 TACAGAATCAGAAACAAATTAAGGCCTCAGCACA-ATCAGA
* * *
66305094 TACAGAATCAGAAATATATTAGGGCCTCAGCACAATCAGA
1 TACAGAATCAGAAACAAATTAAGGCCTCAGCACAATCAGA
66305134 TACAGAAT
1 TACAGAAT
66305142 GCATATCAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 13 0.32
41 28 0.68
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (40 bp):
TACAGAATCAGAAACAAATTAAGGCCTCAGCACAATCAGA
Found at i:66306823 original size:22 final size:22
Alignment explanation
Indices: 66306797--66306841 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
66306787 ATTATGTGTA
66306797 TTAATTCATAATACAA-TTAATT
1 TTAATT-ATAATACAATTTAATT
* *
66306819 TTAATTTTAATCCAATTTAATT
1 TTAATTATAATACAATTTAATT
66306841 T
1 T
66306842 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTATAATACAATTTAATT
Done.