Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 148 of 345
Found at i:40515007 original size:18 final size:18
Alignment explanation
Indices: 40514966--40515007 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
40514956 TTCTTAATTT
*
40514966 TTAATTTTATTCAATTGA
1 TTAATTTTATTCAATTCA
*
40514984 TTAATTTT-TTTAATTCA
1 TTAATTTTATTCAATTCA
40515001 TTGAATT
1 TT-AATT
40515008 ATTAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TTAATTTTATTCAATTCA
Found at i:40515019 original size:25 final size:27
Alignment explanation
Indices: 40514964--40515019 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
40514954 TTTTCTTAAT
* **
40514964 TTTTAATTTTATTCAATTGATTAATTT
1 TTTTAATTTCATTCAATTGATTAATAA
*
40514991 TTTTAA-TTCATTGAATT-ATTAATAA
1 TTTTAATTTCATTCAATTGATTAATAA
40515016 TTTT
1 TTTT
40515020 TATTAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 9 0.36
27 6 0.24
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTAATTTCATTCAATTGATTAATAA
Found at i:40515019 original size:26 final size:28
Alignment explanation
Indices: 40514960--40515021 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
40514950 AGTTTTTTCT
*
40514960 TAATTTTTAATTTTATTCAATTGATTAA
1 TAATTTTTAATTTCATTCAATTGATTAA
* *
40514988 T-TTTTTTAA-TTCATTGAATT-ATTAA
1 TAATTTTTAATTTCATTCAATTGATTAA
40515013 TAATTTTTA
1 TAATTTTTA
40515022 TTAAATCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 6 0.21
26 15 0.52
27 7 0.24
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TAATTTTTAATTTCATTCAATTGATTAA
Found at i:40529613 original size:120 final size:121
Alignment explanation
Indices: 40529449--40529670 Score: 315
Period size: 122 Copynumber: 1.8 Consensus size: 121
40529439 CATAATAACA
* *
40529449 ATGAGAATGAGAATATAAATGTAATGGGTATGAGGTTTTCCTAAT-CTCAATTTAACACGGAATG
1 ATGAGAATAAGAATATAAATGTAATGGGTATGAGGTTTTCCTAATACTCAATTTAACACGAAATG
**
40529513 TATGATAACTAACCTAGGAATGCAAATTAAATGATAAACATTGGCATGGTAATAGC
66 TATGATAACTAACCTAAAAATGCAAATTAAATGATAAACATTGGCATGGTAATAGC
* * * **
40529569 ATGAGAATAAGCATAGT-AATGTCATGGTTATGAGGTGTTT-CTAATAACTTGATTTAACACGAA
1 ATGAGAATAAGAATA-TAAATGTAATGGGTATGAGGT-TTTCCTAAT-ACTCAATTTAACACGAA
40529632 ATGTATGATAACTAACCTAAAAATGCAAATTAAATGATA
63 ATGTATGATAACTAACCTAAAAATGCAAATTAAATGATA
40529671 GAAAAATGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
120 35 0.39
121 4 0.04
122 50 0.56
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.30
Consensus pattern (121 bp):
ATGAGAATAAGAATATAAATGTAATGGGTATGAGGTTTTCCTAATACTCAATTTAACACGAAATG
TATGATAACTAACCTAAAAATGCAAATTAAATGATAAACATTGGCATGGTAATAGC
Found at i:40532749 original size:29 final size:29
Alignment explanation
Indices: 40532644--40532804 Score: 141
Period size: 29 Copynumber: 5.6 Consensus size: 29
40532634 GTGACGAGAT
*
40532644 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
40532673 TGGCAC-AAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
40532701 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** ***
40532730 CGGCACTGGGTGTGCGAGCTCGG-AGGGTA
1 TGGCACTAAGTGTGCGAGCT-GGAAATATA
** *
40532759 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
40532786 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
40532805 AATCGAGTAG
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.02
28 28 0.26
29 76 0.70
30 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:40535274 original size:28 final size:29
Alignment explanation
Indices: 40535242--40535311 Score: 108
Period size: 28 Copynumber: 2.4 Consensus size: 29
40535232 GCGGGAATTG
*
40535242 GCACTAAGTGTGCGAGTTTG-AT-TATATA
1 GCACTAAGTGTGCGAG-TTGAATACATATA
40535270 GCACTAAGTGTGCGAGTTGAATACATATA
1 GCACTAAGTGTGCGAGTTGAATACATATA
40535299 GCACTAAGTGTGC
1 GCACTAAGTGTGC
40535312 AGATCCACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.08
28 18 0.46
29 18 0.46
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAATACATATA
Found at i:40543391 original size:29 final size:29
Alignment explanation
Indices: 40543285--40543446 Score: 141
Period size: 29 Copynumber: 5.6 Consensus size: 29
40543275 GTGACGAGAT
*
40543285 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* * *
40543314 TGGCACCAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
40543343 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** ***
40543372 CGGCACTGGGTGTGCGAGCTCGG-AGGGTA
1 TGGCACTAAGTGTGCGAGCT-GGAAATATA
** *
40543401 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
40543428 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
40543447 AATCGAGTAG
Statistics
Matches: 108, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 2 0.02
28 1 0.01
29 103 0.95
30 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:40555948 original size:31 final size:31
Alignment explanation
Indices: 40555913--40555983 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
40555903 TTACTGGGCC
* *
40555913 GAAGCCTTTTCATAAATCATATCACTGGGTT
1 GAAGCCTTTTCATAAATCATATCACTAGGCT
*
40555944 GAAGCCTTTTCATAAATCATTTCACTAGGCT
1 GAAGCCTTTTCATAAATCATATCACTAGGCT
40555975 GAAGCCTTT
1 GAAGCCTTT
40555984 ACTGTAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTAGGCT
Found at i:40556072 original size:42 final size:42
Alignment explanation
Indices: 40555994--40556085 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
40555984 ACTGTAATAG
* ** *
40555994 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
* *
40556036 GCCCATTTCAATATCATATGAAATACCATTGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
40556078 GCCCATTT
1 GCCCATTT
40556086 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:40556263 original size:25 final size:25
Alignment explanation
Indices: 40556217--40556352 Score: 168
Period size: 26 Copynumber: 5.4 Consensus size: 25
40556207 TCTGGAGGCT
40556217 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
** *
40556241 AGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
*
40556266 AGCCCTTTTCAATAAACTGGGGCGTA
1 AGCCCTTTTCAATAAACTGGGGC-AA
*
40556292 AGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
40556318 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
40556344 AGCCCTTTT
1 AGCCCTTTT
40556353 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.31
26 57 0.59
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:40556346 original size:52 final size:51
Alignment explanation
Indices: 40556217--40556352 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
40556207 TCTGGAGGCT
*
40556217 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTAGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTAGGGCAA
* *
40556266 AGCCCTTTTCAATAAACTGGGGCGTAAGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTAGGGCA-A
*
40556318 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
40556353 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.12
51 23 0.29
52 34 0.44
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTAGGGCAA
Found at i:40556427 original size:20 final size:20
Alignment explanation
Indices: 40556402--40556488 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
40556392 TTATGAATAC
40556402 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
40556422 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
40556442 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
40556462 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
40556482 ATCATGT
1 ATCATGT
40556489 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:40557256 original size:27 final size:27
Alignment explanation
Indices: 40557195--40557259 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
40557185 GGCGTATTCA
*
40557195 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCTTACAAGGGTATTACGG
* *
40557222 TCACTTTACCTTACAGGGGCT-TTACGG
1 TCATTTTACCTTACAAGGG-TATTACGG
*
40557249 TCTTTTTACCT
1 TCATTTTACCT
40557260 ATTAGGGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATTTTACCTTACAAGGGTATTACGG
Found at i:40557319 original size:27 final size:27
Alignment explanation
Indices: 40557289--40557674 Score: 168
Period size: 27 Copynumber: 14.3 Consensus size: 27
40557279 TTTCATCCTA
* * *
40557289 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
40557316 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
40557343 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
40557370 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
40557397 CAATGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * **
40557423 CTAGGGGTGTTTTGGTAATTCTACCCTAT
1 C-AAGGGTATTTTGGTAATTTTA-CAAAT
* * *
40557452 -AGGGGTATTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
40557477 CGAGGGTAAAATGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ***** * **
40557504 CAGGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** **** * *
40557531 TGAGGGTA-AAAAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
40557557 CGAGGGTACTTTGGTAATTTTTACAGGT
1 CAAGGGTATTTTGGTAA-TTTTACAAAT
* **
40557585 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
40557612 TAGGGGGTATTTTAGTAATTTTACAAAC
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* * **
40557640 CAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
40557667 CGAGGGTA
1 CAAGGGTA
40557675 AAACGATAAT
Statistics
Matches: 275, Mismatches: 76, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
25 2 0.01
26 38 0.14
27 190 0.69
28 45 0.16
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:40557458 original size:81 final size:81
Alignment explanation
Indices: 40557310--40557660 Score: 210
Period size: 81 Copynumber: 4.3 Consensus size: 81
40557300 TGGTAAATCT
* * ** * *
40557310 ACAAATCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGG
1 ACAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGG
*
40557375 GTATTTCGGTAATTTC
66 GTATTTCAGTAATTTC
* * **
40557391 ACAAACCAATGGTATTTTGGTAATTTTACAAA-CTAGGGGTGTTTTGGTAATTCTACCCTATAG-
1 ACAAACCAAGGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTA-CAAATAGA
*
40557454 GGGTATTTTAGTAATTTC
64 GGGTATTTCAGTAATTTC
* * *** ** ***** ** *
40557472 AC-AATCGAGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAACAGTAATTCTGTAAATTGAGG
1 ACAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGG
***
40557536 GTA-AAAAGTAA-TTC
66 GTATTTCAGTAATTTC
* * * * ** ** *
40557550 TATAAATCGAGGGTACTTTGGTAATTTTTACAGGTC-GAGGGTATTTCAGTAATTTTACAAATTA
1 -ACAAACCAAGGGTATTTTGGTAA-TTTTACAAATCAG-GGGTATTTTGGTAATTCTACAAA-TA
* * *
40557614 GGGGGTATTTTAGTAATTTT
62 GAGGGTATTTCAGTAATTTC
* *
40557634 ACAAACCAGGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTTGGTAATTTT
40557661 GTAAATCGAG
Statistics
Matches: 199, Mismatches: 60, Indels: 21
0.71 0.21 0.08
Matches are distributed among these distances:
78 3 0.02
79 9 0.05
80 59 0.30
81 89 0.45
82 15 0.08
83 22 0.11
84 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (81 bp):
ACAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGG
GTATTTCAGTAATTTC
Found at i:40557619 original size:28 final size:27
Alignment explanation
Indices: 40557588--40557660 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
40557578 TACAGGTCGA
* **
40557588 GGGTATTTCAGTAATTTTACAAATTAGG
1 GGGTATTTTAGTAATTTTACAAACCA-G
40557616 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAG
40557643 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
40557661 GTAAATCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAG
Found at i:40557684 original size:27 final size:27
Alignment explanation
Indices: 40557653--40557755 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
40557643 GGGTATTTTA
* *
40557653 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
40557680 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
40557707 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
40557734 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
40557756 CTTTGGTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:40557711 original size:54 final size:54
Alignment explanation
Indices: 40557653--40557773 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
40557643 GGGTATTTTA
40557653 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
* * * * * * ***
40557707 GTAATTCTATAAATCGAGGGTAGAACGGTAATTCTGTAAATCGGGGGTACTTTG
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
*
40557761 GTAATTTGGTAAA
1 GTAATTTTGTAAA
40557774 CTAAAGTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
Found at i:40559884 original size:23 final size:23
Alignment explanation
Indices: 40559857--40559938 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 23
40559847 TGGCACCCTC
40559857 TGTGGCGTATTCTATGATGCCTT
1 TGTGGCGTATTCTATGATGCCTT
* *
40559880 TGTGGCATATTCTGTGATGCCTT
1 TGTGGCGTATTCTATGATGCCTT
*
40559903 TGTGGTGTATTCTATGATGCCTT
1 TGTGGCGTATTCTATGATGCCTT
* *
40559926 TATGGCTTATTCT
1 TGTGGCGTATTCT
40559939 GTAATTCCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.46
Consensus pattern (23 bp):
TGTGGCGTATTCTATGATGCCTT
Found at i:40560861 original size:33 final size:33
Alignment explanation
Indices: 40560817--40560883 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
40560807 AGGGACTAAA
40560817 ATGTGAAATAAATGAAATGTATGGACTTCTATG
1 ATGTGAAATAAATGAAATGTATGGACTTCTATG
* *
40560850 ATGTGATATAAATGAAATGTATGGACTTGTATG
1 ATGTGAAATAAATGAAATGTATGGACTTCTATG
40560883 A
1 A
40560884 GCATGGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.34
Consensus pattern (33 bp):
ATGTGAAATAAATGAAATGTATGGACTTCTATG
Found at i:40561495 original size:41 final size:41
Alignment explanation
Indices: 40561366--40561501 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 41
40561356 CATAGGATTT
* * *
40561366 TCGATATGTGTTCTCGTGTAAGACCAC-ATCTGGGACGTTGGCA
1 TCGATATGTGAT-TCGTGTAAGACC-CTGTCTGGGAAG-TGGCA
* * **
40561409 TCGATATGTGATTATGTGTAAGACCATGTCTGGGACA-TCCACA
1 TCGATATGTGATT-CGTGTAAGACCCTGTCTGGGA-AGT-GGCA
*
40561452 TCG-TATTTGATTCGTGTAAGACCCTGTCTGGGATAGTGGCA
1 TCGATATGTGATTCGTGTAAGACCCTGTCTGGGA-AGTGGCA
40561493 TCGATATGT
1 TCGATATGT
40561502 AACATCCCAA
Statistics
Matches: 73, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
41 25 0.34
42 15 0.21
43 33 0.45
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TCGATATGTGATTCGTGTAAGACCCTGTCTGGGAAGTGGCA
Found at i:40562903 original size:53 final size:53
Alignment explanation
Indices: 40562805--40562926 Score: 122
Period size: 53 Copynumber: 2.3 Consensus size: 53
40562795 ATAAACTACT
* ** ** *
40562805 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAACCATGGCAATGGTTAGTTC
1 ATAAGGCAAAGATACCACATAAGACCATGCCAAACCATGAAAATGGTAAGTTC
* * *
40562858 ATAAGGCAAGGATACCACATAAGACCATGTCAAGA-CATGAAAATGGTAAGTTTA
1 ATAAGGCAAAGATACCACATAAGACCATGCCAA-ACCATGAAAATGGTAAG-TTC
*
40562912 AAAAGG-AAAGATACC
1 ATAAGGCAAAGATACC
40562927 TGTGTATCCT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
53 48 0.86
54 8 0.14
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACATAAGACCATGCCAAACCATGAAAATGGTAAGTTC
Found at i:40563298 original size:22 final size:22
Alignment explanation
Indices: 40563272--40563316 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
40563262 ATGATTAAAG
40563272 AATGGCATGTGAATACTTGGTA
1 AATGGCATGTGAATACTTGGTA
40563294 AATGGCATGTGAATACTTGGTA
1 AATGGCATGTGAATACTTGGTA
40563316 A
1 A
40563317 TGATTAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (22 bp):
AATGGCATGTGAATACTTGGTA
Found at i:40572268 original size:40 final size:40
Alignment explanation
Indices: 40572209--40572416 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
40572199 CAATTGAATG
* * * *
40572209 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
40572249 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * * **
40572289 ACATCCGGGCTAATACCCGAAGGCGTTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
40572329 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
40572369 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
40572409 ATATCCGG
1 ATATCCGG
40572417 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:40572347 original size:80 final size:80
Alignment explanation
Indices: 40572211--40572416 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 80
40572201 ATTGAATGAT
* * ** * ** * *
40572211 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGG-CAT
*
40572275 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * * *
40572291 ATCCGGGCTAATACCCGAAGGCGTTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
** *
40572356 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
40572371 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
40572417 TTGTATTCCG
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
79 2 0.02
80 99 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:40573189 original size:43 final size:43
Alignment explanation
Indices: 40573128--40573213 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
40573118 AGTCATGTCT
*
40573128 TATATGTGCAGATTCTATTTTGAGTCTAGTTTCATTAGAAACA
1 TATATGTGCAGATTCTATTTTGAGTCTAGTTTCATTAAAAACA
40573171 TATATGTGCAGATTCTATTTTGAGTCTAGTTTCATTAAAAACA
1 TATATGTGCAGATTCTATTTTGAGTCTAGTTTCATTAAAAACA
40573214 AACGGCACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (43 bp):
TATATGTGCAGATTCTATTTTGAGTCTAGTTTCATTAAAAACA
Found at i:40580092 original size:40 final size:40
Alignment explanation
Indices: 40580033--40580240 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
40580023 CAATTGAATG
* * * *
40580033 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
40580073 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
40580113 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
40580153 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
40580193 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
40580233 ATATCCGG
1 ATATCCGG
40580241 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:40580171 original size:80 final size:80
Alignment explanation
Indices: 40580035--40580240 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
40580025 ATTGAATGAT
* * ** * * *
40580035 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
40580099 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
40580115 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
40580180 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
40580195 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
40580241 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:40582133 original size:32 final size:31
Alignment explanation
Indices: 40582095--40582179 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 31
40582085 AACCCATCAC
* *
40582095 AGTATCAATTCGGCCTAGCCCAAATCAGAATCA
1 AGTATCAATTGGGCCTAGCCCAAATCA-AA-AA
*
40582128 A-TATCAATTGGGCCTAGCCCATATCAAAAA
1 AGTATCAATTGGGCCTAGCCCAAATCAAAAA
*
40582158 AGTATCAGTTGGGCCTAGCCCA
1 AGTATCAATTGGGCCTAGCCCA
40582180 TTTCAATATC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 2 0.04
31 21 0.45
32 23 0.49
33 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (31 bp):
AGTATCAATTGGGCCTAGCCCAAATCAAAAA
Found at i:40582170 original size:31 final size:32
Alignment explanation
Indices: 40582095--40582185 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 32
40582085 AACCCATCAC
* * *
40582095 AGTATCAATTCGGCCTAGCCCAAATCAGAATCA
1 AGTATCAATTGGGCCTAGCCCATATCA-AATAA
40582128 A-TATCAATTGGGCCTAGCCCATATCAAA-AA
1 AGTATCAATTGGGCCTAGCCCATATCAAATAA
* *
40582158 AGTATCAGTTGGGCCTAGCCCATTTCAA
1 AGTATCAATTGGGCCTAGCCCATATCAA
40582186 TATCAAACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
30 2 0.04
31 26 0.50
32 23 0.44
33 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (32 bp):
AGTATCAATTGGGCCTAGCCCATATCAAATAA
Found at i:40582503 original size:26 final size:26
Alignment explanation
Indices: 40582468--40582532 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
40582458 AATCATAGAC
40582468 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAAT-AGTCATTTACCCTCGAGGGGCA
*
40582495 AAATAGTCATTTACCCTTGAGGGGCA
1 AAATAGTCATTTACCCTCGAGGGGCA
*
40582521 AAAGAGTCATTT
1 AAATAGTCATTT
40582533 TGCCCTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (26 bp):
AAATAGTCATTTACCCTCGAGGGGCA
Found at i:40585114 original size:26 final size:26
Alignment explanation
Indices: 40585085--40585246 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
40585075 TGATACAAAT
* *
40585085 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
40585111 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
40585137 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
40585163 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
40585189 TGATAATGGGTCAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
40585215 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
40585241 TGATAA
1 TGATAA
40585247 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:40586728 original size:28 final size:26
Alignment explanation
Indices: 40586686--40586760 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
40586676 AAAAGTAGCT
* *
40586686 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-ATGCA
* *
40586714 AAATTACTATTATACCACTAGGTGCA
1 AAATTACTATTATACCCCTAGATGCA
**
40586740 AAATTACCGTTATACCCCTAG
1 AAATTACTATTATACCCCTAG
40586761 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.52
27 1 0.03
28 18 0.45
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGATGCA
Found at i:40586966 original size:27 final size:27
Alignment explanation
Indices: 40586862--40586976 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
40586852 TGGAGGTAGC
*
40586862 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAATTATCT
* *
40586889 GATCTGGTGGCTCTGCCAC-ATATATCT
1 GTTCTGGTGGCTATGCCACAAT-TATCT
* *
40586916 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTATGCCACAATTATCT
* *
40586943 GTATCTGGTGACTATGTCAC-ATTATCT
1 GT-TCTGGTGGCTATGCCACAATTATCT
40586970 GTTCTGG
1 GTTCTGG
40586977 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 56 0.72
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAATTATCT
Found at i:40586969 original size:54 final size:54
Alignment explanation
Indices: 40586862--40586976 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
40586852 TGGAGGTAGC
* *
40586862 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTATGCCACATATATCT
* * * *
40586916 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTATGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTATGCCACATATATCT
40586970 GTTCTGG
1 GTTCTGG
40586977 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTATGCCACATATATCT
Found at i:40590964 original size:26 final size:26
Alignment explanation
Indices: 40590902--40591035 Score: 216
Period size: 26 Copynumber: 5.2 Consensus size: 26
40590892 GATACAAATG
40590902 GATAATAGGTTAGGTAAATGTT-CAT
1 GATAATAGGTTAGGTAAATGTTCCAT
40590927 GATAATAGGTTAGGTAAATGTTCCAT
1 GATAATAGGTTAGGTAAATGTTCCAT
*
40590953 AATAATAGGTTAGGTAAATGTTCCAT
1 GATAATAGGTTAGGTAAATGTTCCAT
* *
40590979 GATAATGGGTTAGGTAAATGTTTCAT
1 GATAATAGGTTAGGTAAATGTTCCAT
* *
40591005 GATAATGGGTTAGGTAAATGTTTCAT
1 GATAATAGGTTAGGTAAATGTTCCAT
40591031 GATAA
1 GATAA
40591036 GAATTTCATG
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 22 0.21
26 82 0.79
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
GATAATAGGTTAGGTAAATGTTCCAT
Found at i:40592695 original size:27 final size:27
Alignment explanation
Indices: 40592654--40592766 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
40592644 GAGGTAGCGT
*
40592654 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
40592681 TCTGGTTGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
40592708 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
40592736 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
40592762 TCTGG
1 TCTGG
40592767 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:40592759 original size:54 final size:54
Alignment explanation
Indices: 40592652--40592766 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
40592642 TGGAGGTAGC
40592652 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTTGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTTGCTCTGCCACATATATCT
* * * *
40592706 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGG-TGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTTG-CTCTGCCACATATATCT
40592760 GTTCTGG
1 GTTCTGG
40592767 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
54 39 0.71
55 16 0.29
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTTGCTCTGCCACATATATCT
Found at i:40594519 original size:53 final size:53
Alignment explanation
Indices: 40594421--40594525 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
40594411 ATAAACTACT
* * ** *
40594421 ATAAGGCAAAGATCCCATCTAAGACCATGCCAAGGCATGGTAATGGTGAGTTC
1 ATAAGGCAAAGATACCATCTAAGACCATGCCAAGACATGAAAATGGTAAGTTC
* * *
40594474 ATAAGGCAAGGATACCA-CGTACGACCATGTCAAGACATGAAAATGGTAAGTT
1 ATAAGGCAAAGATACCATC-TAAGACCATGCCAAGACATGAAAATGGTAAGTT
40594526 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.02
53 42 0.98
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
ATAAGGCAAAGATACCATCTAAGACCATGCCAAGACATGAAAATGGTAAGTTC
Found at i:40596759 original size:26 final size:26
Alignment explanation
Indices: 40596723--40596774 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
40596713 TTATGGAATG
40596723 GTCATTTAGGTTGGAAATACAAGTAT
1 GTCATTTAGGTTGGAAATACAAGTAT
40596749 GTCATTTAGGTTGGAAATACAAGTAT
1 GTCATTTAGGTTGGAAATACAAGTAT
40596775 TTAAGTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
GTCATTTAGGTTGGAAATACAAGTAT
Found at i:40598601 original size:17 final size:17
Alignment explanation
Indices: 40598576--40598609 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
40598566 TGAAATGTCA
*
40598576 TATGCTGTATTCGAAAG
1 TATGATGTATTCGAAAG
*
40598593 TATGATGTATTCTAAAG
1 TATGATGTATTCGAAAG
40598610 CATTTTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (17 bp):
TATGATGTATTCGAAAG
Found at i:40601129 original size:21 final size:21
Alignment explanation
Indices: 40601103--40601145 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40601093 ATTTTACTTA
40601103 TACCTAATAAAATGTGTGCAT
1 TACCTAATAAAATGTGTGCAT
40601124 TACCTAATAAAATGTGTGCAT
1 TACCTAATAAAATGTGTGCAT
40601145 T
1 T
40601146 GAGTCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TACCTAATAAAATGTGTGCAT
Found at i:40603067 original size:20 final size:20
Alignment explanation
Indices: 40603042--40603100 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
40603032 GCTTGTACGA
40603042 GTTTACACTTCGGTGCCTCC
1 GTTTACACTTCGGTGCCTCC
* *
40603062 GTTTACACTACAGTGCCTCC
1 GTTTACACTTCGGTGCCTCC
40603082 GTTTACA-TTACGGTGCCTC
1 GTTTACACTT-CGGTGCCTC
40603101 TGTATAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.15, C:0.32, G:0.19, T:0.34
Consensus pattern (20 bp):
GTTTACACTTCGGTGCCTCC
Found at i:40604823 original size:23 final size:23
Alignment explanation
Indices: 40604797--40604916 Score: 69
Period size: 23 Copynumber: 5.2 Consensus size: 23
40604787 AAGGGAGTTG
40604797 CAGAATACACCACAAAGGCTTTA
1 CAGAATACACCACAAAGGCTTTA
* * * * *
40604820 CAGAATATACCATACAGGCATCA
1 CAGAATACACCACAAAGGCTTTA
* * * *
40604843 TAAAATACGCCACAAAAGCTTTA
1 CAGAATACACCACAAAGGCTTTA
* * ** * * *
40604866 TAGAGTATGCCACATAGGCATCA
1 CAGAATACACCACAAAGGCTTTA
* * *
40604889 TAGAATACACTATAAAGGCTTTA
1 CAGAATACACCACAAAGGCTTTA
40604912 CAGAA
1 CAGAA
40604917 CATTACGTGT
Statistics
Matches: 67, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (23 bp):
CAGAATACACCACAAAGGCTTTA
Found at i:40604856 original size:46 final size:46
Alignment explanation
Indices: 40604800--40604916 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
40604790 GGAGTTGCAG
*
40604800 AATACACCACAAAGGCTTTACAGAATATACCATACAGGCATCATAA
1 AATACACCACAAAGGCTTTACAGAATATACCACACAGGCATCATAA
* * * * * * *
40604846 AATACGCCACAAAAGCTTTATAGAGTATGCCACATAGGCATCATAG
1 AATACACCACAAAGGCTTTACAGAATATACCACACAGGCATCATAA
* *
40604892 AATACACTATAAAGGCTTTACAGAA
1 AATACACCACAAAGGCTTTACAGAA
40604917 CATTACGTGT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (46 bp):
AATACACCACAAAGGCTTTACAGAATATACCACACAGGCATCATAA
Found at i:40605407 original size:46 final size:46
Alignment explanation
Indices: 40605350--40605459 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 46
40605340 TACATGCATT
* *
40605350 CACAAAGGCTTTACAGAATATACCATACAGGCATCATAAAATACGC
1 CACAAAGGCTTTACAGAATATACCACACAGGCATCATAAAATACAC
* ** * * **
40605396 CACAAAAGCTTTATGGAATATGCCACATAGGCATCATTGAATACAC
1 CACAAAGGCTTTACAGAATATACCACACAGGCATCATAAAATACAC
* *
40605442 TATAAAGGCTTTACAGAA
1 CACAAAGGCTTTACAGAA
40605460 CATTACGTGT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (46 bp):
CACAAAGGCTTTACAGAATATACCACACAGGCATCATAAAATACAC
Found at i:40605834 original size:543 final size:543
Alignment explanation
Indices: 40604807--40605894 Score: 2023
Period size: 543 Copynumber: 2.0 Consensus size: 543
40604797 CAGAATACAC
*
40604807 CACAAAGGCTTTACAGAATATACCATACAGGCATCATAAAATACGCCACAAAAGCTTTATAGAGT
1 CACAAAGGCTTTACAGAATATACCATACAGGCATCATAAAATACGCCACAAAAGCTTTATAGAAT
40604872 ATGCCACATAGGCATCATAGAATACACTATAAAGGCTTTACAGAACATTACGTGTATACTGTCCT
66 ATGCCACATAGGCATCATAGAATACACTATAAAGGCTTTACAGAACATTACGTGTATACTGTCCT
40604937 AGAGGACTATCTCAGAGGGTGCCATAGGTTTCTCCCAAATAGTCATGTACATATCTTCATTTCAT
131 AGAGGACTATCTCAGAGGGTGCCATAGGTTTCTCCCAAATAGTCATGTACATATCTTCATTTCAT
40605002 GATCTACCAGTCTGGTTTACATCTCACCGCAGGCAACACATGAGTATTTTCATTGTCATATGATG
196 GATCTACCAGTCTGGTTTACATCTCACCGCAGGCAACACATGAGTATTTTCATTGTCATATGATG
* * ** *
40605067 CGATGGGTCTCTACCATAGGGTATTACACATATCTACATGTCATGATTTGCCAGTTTGGTTAGCA
261 CCATGGATCTCTACCATAGGGTATTACACATATCTACATGTCATGATTTGCCAGTCCGGCTAGCA
*
40605132 ATGTACTTTCCTATCACATGTATTATAAATGATTGTTTTACTCATTTAACAAAGAATACACTTAC
326 ATGTACTTTCCTATCACATGTATTATAAATGATTGTTTTACTCATTTAACAAAGAACACACTTAC
* * *
40605197 CCAGAATCATTCACACACTCTTTAAAAATTCATACTCTTCCATACATGATTTCACATGCGTACAT
391 CCAGAAACATTCACACACTCCTTAAAAATTCAAACTCTTCCATACATGATTTCACATGCGTACAT
*
40605262 GTCACACATCATCTTATTCATGCAACAACTCATATATCTCATTTGTAAACATGCAAAGCCCTTAC
456 GTCACACATCATCTTATTCACGCAACAACTCATATATCTCATTTGTAAACATGCAAAGCCCTTAC
*
40605327 GATACTTCATATATACATGCATT
521 AATACTTCATATATACATGCATT
*
40605350 CACAAAGGCTTTACAGAATATACCATACAGGCATCATAAAATACGCCACAAAAGCTTTATGGAAT
1 CACAAAGGCTTTACAGAATATACCATACAGGCATCATAAAATACGCCACAAAAGCTTTATAGAAT
*
40605415 ATGCCACATAGGCATCATTGAATACACTATAAAGGCTTTACAGAACATTACGTGTATACTGTCCT
66 ATGCCACATAGGCATCATAGAATACACTATAAAGGCTTTACAGAACATTACGTGTATACTGTCCT
*
40605480 AGAGGACTATCTCAGAGGGTGCCATAGGTTTCTCCCAAATAGTCATGTACATATTTTCATTTCAT
131 AGAGGACTATCTCAGAGGGTGCCATAGGTTTCTCCCAAATAGTCATGTACATATCTTCATTTCAT
* *
40605545 GATCTACCAGTCTGGTTTACATCTCACCGTAGGCAACACATGAGTATTTTTATTGTCATATGATG
196 GATCTACCAGTCTGGTTTACATCTCACCGCAGGCAACACATGAGTATTTTCATTGTCATATGATG
40605610 CCATGGATCTCTACCATAGGGTATTACACATATCTACATGTCATGATTTGCCAGTCCGGCTAGCA
261 CCATGGATCTCTACCATAGGGTATTACACATATCTACATGTCATGATTTGCCAGTCCGGCTAGCA
40605675 ATGTACTTTCCTATCACATGTATTATAAATGATTGTTTTACTCATTTAACAAAGAACACACTTAC
326 ATGTACTTTCCTATCACATGTATTATAAATGATTGTTTTACTCATTTAACAAAGAACACACTTAC
40605740 CCAGAAACATTCACACACTCCTTAAAAATTCAAACTCTTCCATACATGATTTCACATGCGTACAT
391 CCAGAAACATTCACACACTCCTTAAAAATTCAAACTCTTCCATACATGATTTCACATGCGTACAT
40605805 GTCACACATCATCTTATTCACGCAACAACTCATATATCTCATTTGTAAACATGCAAAGCCCTTAC
456 GTCACACATCATCTTATTCACGCAACAACTCATATATCTCATTTGTAAACATGCAAAGCCCTTAC
40605870 AATACTTCATATATACATGCATT
521 AATACTTCATATATACATGCATT
40605893 CA
1 CA
40605895 TCAATAATAT
Statistics
Matches: 528, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
543 528 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (543 bp):
CACAAAGGCTTTACAGAATATACCATACAGGCATCATAAAATACGCCACAAAAGCTTTATAGAAT
ATGCCACATAGGCATCATAGAATACACTATAAAGGCTTTACAGAACATTACGTGTATACTGTCCT
AGAGGACTATCTCAGAGGGTGCCATAGGTTTCTCCCAAATAGTCATGTACATATCTTCATTTCAT
GATCTACCAGTCTGGTTTACATCTCACCGCAGGCAACACATGAGTATTTTCATTGTCATATGATG
CCATGGATCTCTACCATAGGGTATTACACATATCTACATGTCATGATTTGCCAGTCCGGCTAGCA
ATGTACTTTCCTATCACATGTATTATAAATGATTGTTTTACTCATTTAACAAAGAACACACTTAC
CCAGAAACATTCACACACTCCTTAAAAATTCAAACTCTTCCATACATGATTTCACATGCGTACAT
GTCACACATCATCTTATTCACGCAACAACTCATATATCTCATTTGTAAACATGCAAAGCCCTTAC
AATACTTCATATATACATGCATT
Found at i:40610835 original size:43 final size:43
Alignment explanation
Indices: 40610788--40610926 Score: 140
Period size: 44 Copynumber: 3.2 Consensus size: 43
40610778 TCCTAGATGT
* *
40610788 GGTCTTACATGTAATCAAATATCAATGCCACTGTTCCAGACAG
1 GGTCTTACATGTAATCAAATATCAATGCCAATGTCCCAGACAG
* * * * * * *
40610831 GGTCTTACACGAAATCATATA-CGATGCCAATATCCCATACAT
1 GGTCTTACATGTAATCAAATATCAATGCCAATGTCCCAGACAG
*
40610873 GGTCTTACATGTAAATCACAA-ATCAATGTCAATGTCCCAGAC-G
1 GGTCTTACATGT-AATCA-AATATCAATGCCAATGTCCCAGACAG
40610916 TGGTCTTACAT
1 -GGTCTTACAT
40610927 AATAACACAT
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 25 0.33
43 24 0.32
44 26 0.35
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCAATGCCAATGTCCCAGACAG
Found at i:40614011 original size:40 final size:40
Alignment explanation
Indices: 40613928--40614168 Score: 328
Period size: 40 Copynumber: 6.0 Consensus size: 40
40613918 GGATGATAAT
* *
40613928 CGGGCTAAGCCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATC
* * *
40613969 CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
40614009 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
40614049 CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
40614089 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
40614129 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
40614168 C
1 C
40614169 AGTTAAATCC
Statistics
Matches: 182, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 15 0.08
40 140 0.77
41 22 0.12
42 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:40616172 original size:15 final size:15
Alignment explanation
Indices: 40616152--40616190 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
40616142 TATCCTATCT
40616152 TGGGTTTCTTTACTC
1 TGGGTTTCTTTACTC
*
40616167 TGGGTTTCTTTATTC
1 TGGGTTTCTTTACTC
40616182 TGGGTTTCT
1 TGGGTTTCT
40616191 CTATCTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.15, G:0.23, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:40618509 original size:49 final size:49
Alignment explanation
Indices: 40618334--40618565 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 49
40618324 TCTATTGTGA
* * * * * *
40618334 GATCGCATGTGTAGTACTAAGTGCAGGCGACTATGCGTACCTGAAAACTGT
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* * **
40618385 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
40618434 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 -GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
40618484 GATCACGA-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GATCAC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
40618533 GCTCGCATGTGTAGCACTATGTGCAGGCTACTA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTA
40618566 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 73 0.47
50 43 0.28
51 38 0.25
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:40618514 original size:99 final size:101
Alignment explanation
Indices: 40618341--40618522 Score: 280
Period size: 99 Copynumber: 1.8 Consensus size: 101
40618331 TGAGATCGCA
** *
40618341 TGTGTAGTACTAAGTGCAGGCGACTATGCGTACCTGAAAACTGTGATCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCGACTACACGTACCGGAAAACTGTGATCACATGTGTAGTACTAAG
40618406 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * *
40618442 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA-T-TGATCACGA-GTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCGACTACACGTACCGGAAAACTGTGATCAC-ATGTGTAGTACTAA
40618504 GTGCAGGCTACTACGTGTA
65 GTGCAGGCTACTACGTGTA
40618523 CCGGATAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
99 38 0.51
100 2 0.03
101 34 0.46
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCGACTACACGTACCGGAAAACTGTGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:40621602 original size:30 final size:30
Alignment explanation
Indices: 40621566--40621634 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
40621556 TATCGTATCT
*
40621566 TGGGTTTCTTTA-CTCTGGGTTTCTTTATTC
1 TGGGTTTCTTTATCT-TGGATTTCTTTATTC
*
40621596 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGGATTTCTTTATTC
*
40621626 -GGTTTTCTT
1 TGGGTTTCTT
40621635 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 25 0.74
31 2 0.06
ACGTcount: A:0.07, C:0.16, G:0.19, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTTCTTTATTC
Found at i:40621634 original size:14 final size:15
Alignment explanation
Indices: 40621566--40621634 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
40621556 TATCGTATCT
*
40621566 TGGGTTTCTTTACTC
1 TGGGTTTCTTTATTC
40621581 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
40621596 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
40621610 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
40621626 -GGTTTTCTT
1 TGGGTTTCTT
40621635 GTTATCTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.21
15 35 0.74
16 2 0.04
ACGTcount: A:0.07, C:0.16, G:0.19, T:0.58
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:40623917 original size:47 final size:48
Alignment explanation
Indices: 40623748--40623976 Score: 289
Period size: 50 Copynumber: 4.7 Consensus size: 48
40623738 TCTATTGTGA
* * * * *
40623748 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAA-T-T
* * **
40623798 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAATT
*
40623847 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT-TACCGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATT
*
40623895 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GATAATT
* *
40623944 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
40623977 TGCGTACCAG
Statistics
Matches: 158, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
47 36 0.23
48 10 0.06
49 40 0.25
50 70 0.44
51 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATT
Found at i:40623932 original size:97 final size:98
Alignment explanation
Indices: 40623748--40623984 Score: 309
Period size: 97 Copynumber: 2.4 Consensus size: 98
40623738 TCTATTGTGA
*
40623748 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTGTGATCACATGTGTAGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA-GCGTACCCAAAACTGTGATCACATGTGTAGT
* **
40623813 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
65 ACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
40623847 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-CGTTACCGATAA-T-TGGTCACGTGTGTAG
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTAGCG-TACCCAAAACTGTGATCACATGTGTAG
*
40623909 TACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
40623944 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA-GCGTACC
40623985 AGATAGCTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
96 30 0.25
97 48 0.40
98 5 0.04
99 7 0.06
100 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTAGCGTACCCAAAACTGTGATCACATGTGTAGTA
CTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:40631812 original size:42 final size:42
Alignment explanation
Indices: 40631708--40631841 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 42
40631698 TGTGTTATCG
*
40631708 TGTAAGACCAC-GTCTGGGACGTTGGCATCG-ACTTATGATTT-A
1 TGTAAGACC-CTGTCTGGGATGTTGGCATCGTAC-T-TGATTTCA
* *
40631750 TGTGTAAGACCATGTATGGGATGTTGGCATCGTACTTGATTTCA
1 --TGTAAGACCCTGTCTGGGATGTTGGCATCGTACTTGATTTCA
* *
40631794 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGAT-GTTGGCATCG-TACTTGATTTCA
40631837 TGTAA
1 TGTAA
40631842 TACCACGTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
42 26 0.33
43 22 0.28
44 28 0.36
45 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGATGTTGGCATCGTACTTGATTTCA
Found at i:40631832 original size:43 final size:42
Alignment explanation
Indices: 40631708--40631846 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
40631698 TGTGTTATCG
* * * **
40631708 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTATG
1 TGTAAGACCATGTATGGGATGTTGGCATCGTAC-T-TGA-TTACA
*
40631752 TGTAAGACCATGTATGGGATGTTGGCATCGTACTTGATTTCA
1 TGTAAGACCATGTATGGGATGTTGGCATCGTACTTGATTACA
* * *
40631794 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTATGGGAT-GTTGGCATCG-TACTTGATTACA
*
40631837 TGTAATACCA
1 TGTAAGACCA
40631847 CGTCTAGGAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 28 0.35
43 22 0.28
44 28 0.35
45 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTATGGGATGTTGGCATCGTACTTGATTACA
Found at i:40631863 original size:43 final size:42
Alignment explanation
Indices: 40631752--40631869 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
40631742 ATGATTTATG
* * * * *
40631752 TGTAAGACCATGTATGGGATGTTGGCATCGTACTTGATTTCA
1 TGTAAGACCCTGTCTAGGATATTGGCATCGTACTTGATTACA
* * *
40631794 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTAGGATATTGGCATCG-TACTTGATTACA
* *
40631837 TGTAATACCAC-GTCTAGGACT-TTGGCATTGTAC
1 TGTAAGACC-CTGTCTAGGA-TATTGGCATCGTAC
40631870 GAGCTTTCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.45
43 32 0.52
44 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTAAGACCCTGTCTAGGATATTGGCATCGTACTTGATTACA
Found at i:40634131 original size:16 final size:16
Alignment explanation
Indices: 40634112--40634143 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
40634102 TTAACAAGTC
40634112 ATGAGAAAGACAAGAA
1 ATGAGAAAGACAAGAA
40634128 ATGAGAAAGACAAGAA
1 ATGAGAAAGACAAGAA
40634144 CACTGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.25, T:0.06
Consensus pattern (16 bp):
ATGAGAAAGACAAGAA
Found at i:40635916 original size:28 final size:28
Alignment explanation
Indices: 40635879--40635943 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
40635869 CGTGTTCATG
* *
40635879 GCCCATGTCCCTTACACGACCTCGACAT
1 GCCCGTGTCCCTCACACGACCTCGACAT
*
40635907 GCCCGTGTCCCTCACACGGCCTCGACAT
1 GCCCGTGTCCCTCACACGACCTCGACAT
40635935 GCCCGTGTC
1 GCCCGTGTC
40635944 TCAACTCACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.15, C:0.45, G:0.20, T:0.20
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACGACCTCGACAT
Found at i:40637048 original size:49 final size:47
Alignment explanation
Indices: 40636931--40637482 Score: 189
Period size: 47 Copynumber: 11.7 Consensus size: 47
40636921 AGGGTATAAT
** *
40636931 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCAA
* * * *
40636978 GTCGATGCCATGTCCCGGACATGGTCTTCCACTAACT-ATCAAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATC--AATC-AA
* * * *
40637027 GCCGACGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCGCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCAATC-AA
** * ** *
40637073 GTTGATG-CATGTCCTAGACAT-GTCTTACACTCGCTTACATC--TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-T-CATCAATC-AA
* * *
40637119 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCA-ATCAA
* * * * ** ***
40637164 TACCGATGCCATGTCCTAGACAAGGTCTTACATTGGCTCA-CATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATC--AATCAA
* * *
40637213 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACA-CAAAT-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATC-AATCAA
* * * * * *
40637257 CCCTAACGTTACGCATGTCCCAGACAT-GTCTTGCACTAGCTC-TCATTTCAA
1 -GC---CGATGC-CATGTCCCAGACATGGTCTTACACTAACTCATCA-ATCAA
* * * * ** ***
40637308 TGTCGATGCCAAGTCCTAGACAAGGTCTTACACTGGCTCA-CATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATC--AATCAA
* * *
40637357 GCAGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCA-ATCAA
* * ** ***
40637402 TGCCGATGCCATGTCCTAGACAAGGTCTTACACTGGCTCA-CATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATC--AATCAA
*
40637451 GCTGATG-CATGTCCCAGACAT-GTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
40637483 GCATACAAAT
Statistics
Matches: 378, Mismatches: 91, Indels: 73
0.70 0.17 0.13
Matches are distributed among these distances:
43 2 0.01
44 13 0.03
45 20 0.05
46 100 0.26
47 102 0.27
48 68 0.18
49 36 0.10
50 35 0.09
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCAA
Found at i:40637302 original size:144 final size:144
Alignment explanation
Indices: 40637125--40637390 Score: 469
Period size: 144 Copynumber: 1.8 Consensus size: 144
40637115 CGAGGTCGAT
*
40637125 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATACCGATGCCATGTCCTAGACAAGGT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATACCGATGCCAAGTCCTAGACAAGGT
* *
40637190 CTTACATTGGCTCACATAATGTGGCTGATGCATGTCCCAGACATGTCTTACACTAGCACACAAAT
66 CTTACACTGGCTCACATAATGTGGCAGATGCATGTCCCAGACATGTCTTACACTAGCACACAAAT
40637255 AACCCTAACGTTAC
131 AACCCTAACGTTAC
* * **
40637269 GCATGTCCCAGACATGTCTTGCACTAGCTCTCATTTCAATGTCGATGCCAAGTCCTAGACAAGGT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATACCGATGCCAAGTCCTAGACAAGGT
40637334 CTTACACTGGCTCACATAATGTGGCAGATGCATGTCCCAGACATGTCTTACACTAGC
66 CTTACACTGGCTCACATAATGTGGCAGATGCATGTCCCAGACATGTCTTACACTAGC
40637391 TCTCATCTCA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 115 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATACCGATGCCAAGTCCTAGACAAGGT
CTTACACTGGCTCACATAATGTGGCAGATGCATGTCCCAGACATGTCTTACACTAGCACACAAAT
AACCCTAACGTTAC
Found at i:40637364 original size:48 final size:46
Alignment explanation
Indices: 40637076--40637481 Score: 215
Period size: 46 Copynumber: 8.6 Consensus size: 46
40637066 TCTCGCAGTT
* * * * * *
40637076 GATGCATGTCCTAGACATGTCTTACACTCGCTTACAT-CTCGAGGTC-
1 GATGCATGTCCCAGACAGGTCTTACACTGGCTCACATAAT-GTGG-CA
* * * * *
40637122 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA--T-ACC
1 GATGCATGTCCCAGACAGGTCTTACACTGGCTCACA--T-AATGTGGCA
* * *
40637168 GATGCCATGTCCTAGACAAGGTCTTACATTGGCTCACATAATGTGGCT
1 GATG-CATGTCCCAGAC-AGGTCTTACACTGGCTCACATAATGTGGCA
* * * ****
40637216 GATGCATGTCCCAGACATGTCTTACACTAGCACACA-AATAACCCTAA
1 GATGCATGTCCCAGACAGGTCTTACACTGGCTCACATAATGTGGC--A
* * * * *
40637263 CGTTACGCATGTCCCAGACATGTCTTGCACTAGCTCTCATTTCAATGT--C-
1 -G--ATGCATGTCCCAGACAGGTCTTACACTGGCTCACA--T-AATGTGGCA
* *
40637312 GATGCCAAGTCCTAGACAAGGTCTTACACTGGCTCACATAATGTGGCA
1 GATG-CATGTCCCAGAC-AGGTCTTACACTGGCTCACATAATGTGGCA
* * * *
40637360 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA--T-GCC
1 GATGCATGTCCCAGACAGGTCTTACACTGGCTCACA--T-AATGTGGCA
* *
40637406 GATGCCATGTCCTAGACAAGGTCTTACACTGGCTCACATAATGTGGCT
1 GATG-CATGTCCCAGAC-AGGTCTTACACTGGCTCACATAATGTGGCA
*
40637454 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACAGGTCTTACACT
40637482 AGCATACAAA
Statistics
Matches: 278, Mismatches: 50, Indels: 64
0.71 0.13 0.16
Matches are distributed among these distances:
45 14 0.05
46 91 0.33
47 68 0.24
48 68 0.24
49 2 0.01
50 31 0.11
52 1 0.00
54 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACAGGTCTTACACTGGCTCACATAATGTGGCA
Found at i:40637373 original size:94 final size:94
Alignment explanation
Indices: 40637269--40637484 Score: 387
Period size: 94 Copynumber: 2.3 Consensus size: 94
40637259 CTAACGTTAC
* * *
40637269 GCATGTCCCAGACATGTCTTGCACTAGCTCTCATTTCAATGTCGATGCCAAGTCCTAGACAAGGT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCAAGTCCTAGACAAGGT
40637334 CTTACACTGGCTCACATAATGTGGCAGAT
66 CTTACACTGGCTCACATAATGTGGCAGAT
*
40637363 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCTAGACAAGGT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCAAGTCCTAGACAAGGT
*
40637428 CTTACACTGGCTCACATAATGTGGCTGAT
66 CTTACACTGGCTCACATAATGTGGCAGAT
40637457 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
40637485 ATACAAATAA
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 117 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (94 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCAAGTCCTAGACAAGGT
CTTACACTGGCTCACATAATGTGGCAGAT
Found at i:40644771 original size:47 final size:46
Alignment explanation
Indices: 40644700--40644975 Score: 242
Period size: 47 Copynumber: 5.8 Consensus size: 46
40644690 GGTATAATAC
*
40644700 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCCATCACGT
* *
40644747 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATTCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-CATCA--CGT
* * *
40644795 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACGTGT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCCATCAC--GT
* * * *
40644845 CGATGCCATGTCCCAGACAT-GTCTTACGCTGGAT-TACATCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCA--TC-ACGT
* * * *
40644892 TGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTC-TCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--CATC-ACGT
40644938 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
40644976 ATAATGTGGT
Statistics
Matches: 186, Mismatches: 26, Indels: 33
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.01
46 36 0.19
47 67 0.36
48 40 0.22
49 2 0.01
50 36 0.19
51 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCATCACGT
Found at i:40644869 original size:97 final size:97
Alignment explanation
Indices: 40644699--40644976 Score: 297
Period size: 97 Copynumber: 2.9 Consensus size: 97
40644689 GGGTATAATA
* * * * *
40644699 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAC-GTCAATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCTCTAT-ACTGTCGATGCCATGTCCCAG
* * *
40644763 ACATGGTCTTACACTAGCTCTCACATATTCG-TG
65 ACATGGTCTTACACTGGCTCTCACAT-CTCGAGG
*
40644796 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGTCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCTCTATAC-TGTCGATGCCATGTCCCAG
* *
40644861 ACAT-GTCTTACGCTGGAT-T-ACATCTCGAGG
65 ACATGGTCTTACACTGGCTCTCACATCTCGAGG
** *
40644891 TTGATG-CATGTCCTAGACAT-GTCTTACACT-AGCTCTCGTCTCA-A-TGTCGATGCCATGTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTC-C-TCT-ATACTGTCGATGCCATGTCC
40644951 CAGACATGGTCTTACACTGGCTCTCA
62 CAGACATGGTCTTACACTGGCTCTCA
40644977 TAATGTGGTT
Statistics
Matches: 154, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
92 1 0.01
93 35 0.23
94 29 0.19
95 14 0.09
96 5 0.03
97 49 0.32
98 21 0.14
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (97 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCTCTATACTGTCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTCACATCTCGAGG
Found at i:40645003 original size:94 final size:93
Alignment explanation
Indices: 40644749--40645019 Score: 277
Period size: 94 Copynumber: 2.9 Consensus size: 93
40644739 CATCACGTCA
* * ** *
40644749 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-TCGTGCCGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGT-G-GTTGATG-CATGTCCTAG
40644813 ACATGGTCTTACACT-GACACCTCTATACGTGTCG
62 ACAT-GTCTTACACTAG-CACCTCTATAC-TGTCG
* * * *
40644847 ATGCCATGTCCCAGACAT-GTCTTACGCTGGAT-TACAT-CTCGAGGTTGATGCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGTTGATGCATGTCCTAGAC
*
40644909 ATGTCTTACACTAGCTCTCGTCTCA-A-TGTCG
64 ATGTCTTACACTAGCAC-C-TCT-ATACTGTCG
*
40644940 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATTTCCTAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCTAGACAT
*
40645005 GTCTAACACTAGCAC
66 GTCTTACACTAGCAC
40645020 TTAAATAACC
Statistics
Matches: 146, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
93 35 0.24
94 65 0.45
95 12 0.08
96 3 0.02
97 13 0.09
98 18 0.12
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCTAGACAT
GTCTTACACTAGCACCTCTATACTGTCG
Found at i:40645004 original size:47 final size:46
Alignment explanation
Indices: 40644889--40645017 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 46
40644879 TACATCTCGA
*
40644889 GGTTGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGTTGATGCATGTCCTAGACATGTCTTACACTAGCTCTCG-ATCAAT
* * *
40644936 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGT
1 GGTTGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCGATCAA--T
* *
40644983 GGTTGATGCATTTCCTAGACATGTCTAACACTAGC
1 GGTTGATGCATGTCCTAGACATGTCTTACACTAGC
40645018 ACTTAAATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
45 2 0.03
46 18 0.26
47 26 0.38
48 22 0.32
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (46 bp):
GGTTGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGATCAAT
Found at i:40648018 original size:13 final size:13
Alignment explanation
Indices: 40648000--40648032 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
40647990 GGTTGTTTAT
40648000 TAAACTAATTAAC
1 TAAACTAATTAAC
40648013 TAAACTAATTAAC
1 TAAACTAATTAAC
40648026 T-AACTAA
1 TAAACTAA
40648033 ACTAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:40650522 original size:18 final size:18
Alignment explanation
Indices: 40650480--40650515 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40650470 CTAAAACCAC
40650480 AAGCA-CAACCATTCTCA
1 AAGCATCAACCATTCTCA
*
40650497 AATCATCAACCATTCTCA
1 AAGCATCAACCATTCTCA
40650515 A
1 A
40650516 GCAATCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (18 bp):
AAGCATCAACCATTCTCA
Found at i:40658002 original size:55 final size:55
Alignment explanation
Indices: 40657874--40658052 Score: 144
Period size: 55 Copynumber: 3.2 Consensus size: 55
40657864 CAACACCAGT
* * * * ** * * *
40657874 GTGTGACACGCCCGTGCTTGGAAACCGTGGCTGAACCTATCAAAATTAACACGGGC
1 GTGTGACACACCCATGCCTGGAAACCATGGCCAAACCTACCAAAA-CAAAACGGGC
* * * * *
40657930 GTGTGGCACTCCCATGCC-GAGCAACCATGGTCAAACCTGCCAAAACAAAACGGGC
1 GTGTGACACACCCATGCCTG-GAAACCATGGCCAAACCTACCAAAACAAAACGGGC
* * * * ** *
40657985 GTGCGACACACCTATGCCTGGAAACCGTGGCCAAACCTATCAAATTAACACGGGC
1 GTGTGACACACCCATGCCTGGAAACCATGGCCAAACCTACCAAAACAAAACGGGC
40658040 GTGTGACACACCC
1 GTGTGACACACCC
40658053 GTGTTGAGCA
Statistics
Matches: 94, Mismatches: 27, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
55 61 0.65
56 33 0.35
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (55 bp):
GTGTGACACACCCATGCCTGGAAACCATGGCCAAACCTACCAAAACAAAACGGGC
Found at i:40662884 original size:51 final size:50
Alignment explanation
Indices: 40662822--40662919 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 50
40662812 CCTAGGGTTA
40662822 GACGTTCTTAGTCTCAAGATGGATAATAATATAACTTAGGGATTTCTACGG
1 GACGTTCTTAGTCTCAAGATGGATAATAATATAACTTAGGG-TTTCTACGG
*
40662873 GACGTTGTTAGTCTCAAGATGGATAATAATATAACTTAGGGTTTCTA
1 GACGTTCTTAGTCTCAAGATGGATAATAATATAACTTAGGGTTTCTA
40662920 TGGATCAAGT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 6 0.13
51 40 0.87
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (50 bp):
GACGTTCTTAGTCTCAAGATGGATAATAATATAACTTAGGGTTTCTACGG
Found at i:40673667 original size:50 final size:49
Alignment explanation
Indices: 40673541--40673786 Score: 234
Period size: 50 Copynumber: 5.0 Consensus size: 49
40673531 TCTATAGTGA
* **
40673541 GGTCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACTGGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGATAACTT
** * *
40673590 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTA-TGCTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTG-TACCAGATAACTT
* * * * **
40673639 AGATCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTATCAAAT-GGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGATAACTT
40673689 CGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAA-TT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAG-ATAACTT
* *
40673739 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA-TGCGTACCAGATAAC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACT--GTACCAGATAAC
40673787 CTTGTCTACA
Statistics
Matches: 162, Mismatches: 24, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
47 3 0.02
48 8 0.05
49 71 0.44
50 73 0.45
51 5 0.03
52 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTGTACCAGATAACTT
Found at i:40673750 original size:99 final size:99
Alignment explanation
Indices: 40673543--40673771 Score: 267
Period size: 99 Copynumber: 2.3 Consensus size: 99
40673533 TATAGTGAGG
* * *
40673543 TCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGCATAATTGGTTGCATGTGTAGTACT
40673608 AAGTGCAGGCTACTATGCTACCCGATAACTTAGA
66 AAGTGCAGGCTACTATGCTACCCGATAACTTAGA
* *
40673642 TCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTA-T-CA-AA-TGGTTCGGTCACGTGTGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGCATAATTGGTT--G-CA--TGTGTA
*
40673703 GTACTAAGTGCAGGCTACTACGTG-TA-CCGAATAA-TT-GG
61 GTACTAAGTGCAGGCTACTA--TGCTACCCG-ATAACTTAGA
*
40673741 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
40673772 TGCGTACCAG
Statistics
Matches: 115, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
95 5 0.04
96 2 0.02
97 2 0.02
98 3 0.03
99 64 0.56
100 31 0.27
101 6 0.05
102 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGCATAATTGGTTGCATGTGTAGTACT
AAGTGCAGGCTACTATGCTACCCGATAACTTAGA
Found at i:40685054 original size:37 final size:37
Alignment explanation
Indices: 40685001--40685122 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
40684991 TTATTACAAA
*
40685001 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
40685038 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
* * *
40685075 GTCTTACCTGGTCAAAATCTCCGCACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
40685112 GTCTCACCCGG
1 GTCTTACCCGG
40685123 AACATATTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 79 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:40685458 original size:49 final size:49
Alignment explanation
Indices: 40685177--40685450 Score: 440
Period size: 49 Copynumber: 5.6 Consensus size: 49
40685167 ATTCACATTT
* * * * *
40685177 GCCATTCGGCTTTACCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
* * *
40685226 GCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
* *
40685275 GCCATTAAGCCTTATCACATATACATACACCATCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
*
40685324 GCCATTAGGCCTTATCACATATACATACACCATCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
40685373 GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
*
40685422 GCCATTAGGCCTTATCACATATATATACA
1 GCCATTAGGCCTTATCACATATACATACA
40685451 TTTTCACAAA
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 211 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCG
Found at i:40692524 original size:144 final size:144
Alignment explanation
Indices: 40692264--40692731 Score: 602
Period size: 144 Copynumber: 3.2 Consensus size: 144
40692254 TTAAAGTATG
* * * * * * *
40692264 AATGCCATGTCCCCGACATAGTCTTACA-TGAACCCACATATCATCGCTGATGCCATGTCCTAGA
1 AATGCCATGTCCCAGACATGGTCTTACACTG-GCACACATATCATCGCCGATGCCATGTCCCAAA
* *
40692328 CATGGTCTTACACT-GGCACACATATCATCACTAATGCCATGTCCCAAACATGGTCTTACACAGG
65 CATGGTCTTACA-TAGGCACACATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGG
*
40692392 CACTTATATCATCGCT
129 CACATATATCATCGCT
* *
40692408 AATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAAC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAAAC
* * *
40692473 ATGGTCTTACATAGGCACAGATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGTA
66 ATGGTCTTACATAGGCACACATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* *
40692538 CGTATATCATCGCC
131 CATATATCATCGCT
* * *
40692552 GATGCCATGTCCCAGACATGGTCTTAC-GTAGGCACACATATCATCGTCGATGCCATGTCCCAAA
1 AATGCCATGTCCCAGACATGGTCTTACACT-GGCACACATATCATCGCCGATGCCATGTCCCAAA
* * * * *
40692616 CATGGTCTTACACAGGCACATATATCATCCCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
65 CATGGTCTTACATAGGCACACATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGC
40692681 ACATATATCATCG-T
130 ACATATATCATCGCT
* ** * *
40692695 CGATGCCATGTCTTAGAGATGGTCTTACACCGGCACA
1 -AATGCCATGTCCCAGACATGGTCTTACACTGGCACA
40692732 TTTAGCACGG
Statistics
Matches: 285, Mismatches: 34, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
143 2 0.01
144 281 0.99
145 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (144 bp):
AATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAAAC
ATGGTCTTACATAGGCACACATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCA
CATATATCATCGCT
Found at i:40692724 original size:48 final size:47
Alignment explanation
Indices: 40692265--40692732 Score: 537
Period size: 48 Copynumber: 9.8 Consensus size: 47
40692255 TAAAGTATGA
* * * * *
40692265 ATGCCATGTCCCCGACATAGTCTTACA-TGAACCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-GCACATATATCATCGC-G
* * * *
40692313 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCATCACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGC-G
* * * *
40692361 ATGCCATGTCCCAAACATGGTCTTACACAGGCACTTATATCATCGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGC-G
* * *
40692409 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATC-GCG
* *
40692457 ATGCCATGTCCCAAACATGGTCTTACA-TAGGCACAGATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GGCACATATATCATCGC-G
* * *
40692505 ATGCCATGTCCCAGACATGGTCTTACACAGGTACGTATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCG-CG
* *
40692553 ATGCCATGTCCCAGACATGGTCTTAC-GTAGGCACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GGCACATATATCATCG-CG
* * *
40692601 ATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCCCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCAT-CGCG
40692649 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCG-CG
** * *
40692697 ATGCCATGTCTTAGAGATGGTCTTACACCGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
40692733 TTAGCACGGT
Statistics
Matches: 367, Mismatches: 43, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
47 3 0.01
48 359 0.98
49 5 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCG
Found at i:40704967 original size:40 final size:40
Alignment explanation
Indices: 40704804--40704967 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 40
40704794 CGGGATTTAA
* * * * *
40704804 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGACATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
** *** * * *
40704844 CCGGATTTGGTAACTTGTACAATTGCCTTCGGGTCTTAGC
1 CCGGACATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
40704884 CCGAATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGACATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* *
40704924 CCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGACATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGC
40704964 CCGG
1 CCGG
40704968 GTATCATTCA
Statistics
Matches: 99, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 98 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGACATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40738600 original size:38 final size:38
Alignment explanation
Indices: 40738535--40738628 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
40738525 TCAATCATGC
* *
40738535 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
40738574 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
40738612 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
40738629 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:40738861 original size:24 final size:24
Alignment explanation
Indices: 40738820--40738913 Score: 115
Period size: 23 Copynumber: 4.0 Consensus size: 24
40738810 GCTTTATCAT
*
40738820 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
40738845 ATAA-TGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
40738868 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
40738891 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
40738914 TCACTTCCTC
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
23 36 0.58
24 22 0.35
25 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40738900 original size:47 final size:48
Alignment explanation
Indices: 40738820--40738912 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 48
40738810 GCTTTATCAT
*
40738820 ATAACTGGAGGCCTAGCCTCTTTTAATAATGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAATGGGG-CATAAGCCCTTTCA
40738868 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAA-TGGGGCATAAGCCCTTT
40738913 TTCACTTCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
46 6 0.15
47 23 0.56
48 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAATGGGGCATAAGCCCTTTCA
Found at i:40738988 original size:20 final size:20
Alignment explanation
Indices: 40738963--40739022 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
40738953 TATGATTACC
40738963 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
40738983 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
40739003 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
40739023 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:40739097 original size:25 final size:25
Alignment explanation
Indices: 40739065--40739112 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40739055 ATACATAAAC
* * *
40739065 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40739090 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40739113 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:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40747099 original size:24 final size:24
Alignment explanation
Indices: 40747053--40747146 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
40747043 GCTTTATCAT
*
40747053 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
40747078 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
40747102 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
40747124 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
40747147 TCACTTCCTC
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
22 19 0.31
23 7 0.11
24 23 0.37
25 13 0.21
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40747130 original size:22 final size:23
Alignment explanation
Indices: 40747074--40747145 Score: 112
Period size: 22 Copynumber: 3.1 Consensus size: 23
40747064 CCTAGCCTCT
40747074 TTTAATAACTGGGGCCA-AAGCCC
1 TTTAATAACTGGGG-CATAAGCCC
40747097 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
40747121 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
40747143 TTT
1 TTT
40747146 TTCACTTCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
22 22 0.47
23 5 0.11
24 20 0.43
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:40747222 original size:20 final size:20
Alignment explanation
Indices: 40747197--40747256 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
40747187 TATGATTACC
40747197 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
40747217 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
40747237 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
40747257 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:40747329 original size:25 final size:25
Alignment explanation
Indices: 40747297--40747345 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
40747287 TCATACATAA
* * *
40747297 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGCAAAACGGTCATTTTT
40747322 ACCTAGGGGCAAAACGGTCATTTT
1 ACCTAGGGGCAAAACGGTCATTTT
40747346 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGCAAAACGGTCATTTTT
Found at i:40750401 original size:40 final size:39
Alignment explanation
Indices: 40750335--40750485 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
40750325 AAATTGAATG
* * *
40750335 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
40750374 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
40750414 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
40750454 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
40750486 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:40750499 original size:40 final size:39
Alignment explanation
Indices: 40750372--40750501 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
40750362 ATGCTGGAAA
* *
40750372 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
40750412 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
40750452 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
40750492 TTATATCCGG
1 TTATATCCGG
40750502 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:40757500 original size:17 final size:18
Alignment explanation
Indices: 40757458--40757506 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
40757448 AGTTGAAAAG
40757458 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
40757477 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
40757494 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
40757507 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:40758390 original size:40 final size:40
Alignment explanation
Indices: 40758324--40758490 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
40758314 AAATTGAATG
* * *
40758324 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
40758363 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
40758403 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
40758443 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
40758483 ATATCCGG
1 ATATCCGG
40758491 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:40760527 original size:38 final size:38
Alignment explanation
Indices: 40760468--40760630 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
40760458 TCAATCATGC
*
40760468 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
40760507 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
40760545 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
40760576 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
40760614 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
40760631 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 68 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:40760533 original size:31 final size:31
Alignment explanation
Indices: 40760491--40760604 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
40760481 CCTTTTCATA
40760491 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
40760528 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
40760560 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
40760591 TTTCATGTTTCATA
1 TTTCATATTTCATA
40760605 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:40760602 original size:69 final size:69
Alignment explanation
Indices: 40760491--40760630 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
40760481 CCTTTTCATA
40760491 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
40760556 GCCT
66 GCCT
*
40760560 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
40760625 GCCT
66 GCCT
40760629 TT
1 TT
40760631 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:40760901 original size:23 final size:23
Alignment explanation
Indices: 40760821--40760916 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 23
40760811 TGCTTTATCA
40760821 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCCTAAGCC-CTTT
*
40760845 TAATAACTGGGGCCAAAGCCCTTT
1 T-ATAACTGGGGCCTAAGCCCTTT
* *
40760869 CAATAACTGGGGCGTAAGCCCTTT
1 -TATAACTGGGGCCTAAGCCCTTT
*
40760893 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCCTAAGCCCTTT
40760916 T
1 T
40760917 TCACTTCCTC
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
23 22 0.35
24 29 0.46
25 12 0.19
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCCTAAGCCCTTT
Found at i:40760901 original size:47 final size:49
Alignment explanation
Indices: 40760822--40760915 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
40760812 GCTTTATCAT
40760822 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
40760871 ATAACTGG-GGCGTAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
40760916 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:40760992 original size:20 final size:20
Alignment explanation
Indices: 40760967--40761026 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
40760957 TATGATTACC
40760967 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
40760987 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
40761007 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
40761027 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:40761101 original size:25 final size:25
Alignment explanation
Indices: 40761069--40761116 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40761059 ATACATAAAC
* * *
40761069 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40761094 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40761117 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:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40763238 original size:93 final size:93
Alignment explanation
Indices: 40763111--40763283 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
40763101 CGCCCATAAG
*
40763111 CGAACTCAGACTCAACTCAATGAGCTCAGGCATTCGCATCCACAAGTGAACTCGGACCCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCACAAGTGAACTCGGACCCAACTCA
40763176 ACGAGCTT-GGATGCCTAGTTATATCTCT
66 ACGAG-TTCGGATGCCTAGTTATATCTCT
* * * *
40763204 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCACAAGTGAACTCGGACCCAACTC
40763268 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
40763284 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCACAAGTGAACTCGGACCCAACTCA
ACGAGTTCGGATGCCTAGTTATATCTCT
Found at i:40763279 original size:46 final size:45
Alignment explanation
Indices: 40763104--40763278 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
40763094 TGTAACCCGC
* * * *
40763104 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* * *
40763150 CCACAAGTGAACTCGGACCCAACTCAACGAGCTT-GG-ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGCATTCGC-A-T
* **
40763195 -TATATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATA--AGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
40763243 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
40763279 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 3 0.03
46 57 0.56
47 26 0.25
48 1 0.01
49 7 0.07
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:40763298 original size:46 final size:45
Alignment explanation
Indices: 40763155--40763298 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 45
40763145 CGCATCCACA
* *
40763155 AGTGAACTCGGACCCAACTCAACGAGCTT-GGATGCCTAGTTATATCTCT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCCCA---ATATC-CT
* * *
40763204 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC---ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAATATCC-T
40763247 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCT
40763294 AGTGA
1 AGTGA
40763299 CATGTCACTT
Statistics
Matches: 76, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 35 0.46
47 25 0.33
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCT
Found at i:40770070 original size:40 final size:40
Alignment explanation
Indices: 40770025--40770191 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40770015 CGGAATATAA
40770025 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40770065 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
40770105 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40770145 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40770184 CCGGATAT
1 CCGGATAT
40770192 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40770175 original size:80 final size:79
Alignment explanation
Indices: 40770025--40770191 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40770015 CGGAATATAA
* *
40770025 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
40770090 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
40770105 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
40770167 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
40770184 CCGGATAT
1 CCGGATAT
40770192 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:40771036 original size:17 final size:19
Alignment explanation
Indices: 40771013--40771058 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
40771003 AAGAAGCATG
40771013 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
40771031 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
40771049 AATCATGCTC
1 AATCATGCTC
40771059 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:40778065 original size:40 final size:40
Alignment explanation
Indices: 40778020--40778186 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40778010 CGGAATATAA
40778020 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40778060 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
40778100 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40778140 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40778179 CCGGATAT
1 CCGGATAT
40778187 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40778170 original size:80 final size:79
Alignment explanation
Indices: 40778020--40778186 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40778010 CGGAATATAA
* *
40778020 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
40778085 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
40778100 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
40778162 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
40778179 CCGGATAT
1 CCGGATAT
40778187 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:40779032 original size:17 final size:19
Alignment explanation
Indices: 40779009--40779054 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
40778999 AAGAAGCATG
40779009 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
40779027 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
40779045 AATCATGCTC
1 AATCATGCTC
40779055 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:40780471 original size:47 final size:47
Alignment explanation
Indices: 40780397--40780822 Score: 638
Period size: 47 Copynumber: 9.1 Consensus size: 47
40780387 ATGCATTTCG
* * * * * *
40780397 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* *
40780444 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
40780491 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
40780538 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
40780585 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
40780632 CATTGGCCATTCGGCCTTATCACAGATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
40780679 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
40780726 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* ** **
40780773 GATTGGCCATTCGGCCTTATCACATATATATACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
40780820 CAT
1 CAT
40780823 AAAATCCTAA
Statistics
Matches: 346, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 345 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:40785726 original size:92 final size:93
Alignment explanation
Indices: 40785604--40785773 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 93
40785594 TATCTGTGTC
* *
40785604 GATGCCATGTCCCAGATAGGGTCCTACACTGACACATC-T-CGTAGCCTATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACAGGGTCCTACACTGACAC-TCATACGTAGCCGATGCATGTCCCAGACA
40785667 TGTCTGACACTAGAACTCGTCTCAATGCT
65 TGTCTGACACTAGAACTCGTCTCAATGCT
* * * * * * *
40785696 GATGCCATGTCCCAGACATGGTCTTTCACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACAGGGTCCTACACTGACACTCAT-ACGTAGCCGATGCATGTCCCAGACA
*
40785761 TGTCTTACACTAG
65 TGTCTGACACTAG
40785774 CTCACACAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
91 2 0.03
92 30 0.46
94 33 0.51
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAGGGTCCTACACTGACACTCATACGTAGCCGATGCATGTCCCAGACAT
GTCTGACACTAGAACTCGTCTCAATGCT
Found at i:40789209 original size:36 final size:35
Alignment explanation
Indices: 40789096--40789233 Score: 188
Period size: 35 Copynumber: 3.9 Consensus size: 35
40789086 TATATAATCG
* *
40789096 GCCATATCTGATGATATATTGAGTTTGTATATTCA
1 GCCATATGTGATGATATATTGAATTTGTATATTCA
* *
40789131 GCCATATGTGATGGTATATTGAATTTGTATATTCG
1 GCCATATGTGATGATATATTGAATTTGTATATTCA
*
40789166 GCTATATGTGATGATATATTGAATTTTGTATAATT-A
1 GCCATATGTGATGATATATTGAA-TTTGTAT-ATTCA
*
40789202 GCCATATGTGATGATATATTGAACGTTGTATA
1 GCCATATGTGATGATATATTGAA-TTTGTATA
40789234 ATCAATCTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
35 53 0.58
36 35 0.38
37 3 0.03
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (35 bp):
GCCATATGTGATGATATATTGAATTTGTATATTCA
Found at i:40797020 original size:36 final size:35
Alignment explanation
Indices: 40796899--40797049 Score: 203
Period size: 35 Copynumber: 4.3 Consensus size: 35
40796889 ATGAACCTTA
40796899 TATAATCGGCCATATGTGATGATATATTGAATTTG
1 TATAATCGGCCATATGTGATGATATATTGAATTTG
* * * *
40796934 TATATTTGACCATATGTGATGGTATATTGAATTTG
1 TATAATCGGCCATATGTGATGATATATTGAATTTG
* * *
40796969 TATATTCGGCTATATGTGATGATATATTGGATTTTG
1 TATAATCGGCCATATGTGATGATATATT-GAATTTG
* *
40797005 TATAATCAGCCATATGTGATGATATATTGAACCTTG
1 TATAATCGGCCATATGTGATGATATATTGAA-TTTG
40797041 TATAATCGG
1 TATAATCGG
40797050 TCTTATAGGT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
35 57 0.58
36 42 0.42
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (35 bp):
TATAATCGGCCATATGTGATGATATATTGAATTTG
Found at i:40809387 original size:49 final size:49
Alignment explanation
Indices: 40809334--40809852 Score: 742
Period size: 49 Copynumber: 10.7 Consensus size: 49
40809324 GATTTTACGC
* * * *
40809334 GATGAATGTGAATGTGTATATATATGAGATACGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* * * *
40809383 GATGAATATGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* * *
40809432 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCTGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
40809481 GATGAATGTGAAAGTGTTTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
40809530 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
40809579 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
40809628 GATGAATGTGAAAGCGTATAGATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
40809677 GATGAATGTGAAAGTGTATATATATGTGATAAGGACTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
40809726 GATGAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* * * * *
40809775 GATGAATATG-AA-TGTGTATATATGTGATAGGGCCGAGTGGCC-AACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAA-GT
*
40809822 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
40809853 TCCCGAGTGG
Statistics
Matches: 432, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 45 0.10
48 5 0.01
49 381 0.88
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
Found at i:40813380 original size:46 final size:46
Alignment explanation
Indices: 40813291--40813507 Score: 185
Period size: 46 Copynumber: 4.6 Consensus size: 46
40813281 TATCTTAAGT
* * *
40813291 CGATGCCATGTCCCAGGCATGGTCTTACACTGAC-TATCCT-CTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATACTCGT-GC
* *
40813339 TGATGCATGTCCCAGACATGTCTTACACTGGCTTACAT-CTCGTGGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATACTCGT-GC
* ** * *
40813385 CGATGCATGTCCCAGACATGTCTTACACTAGCCCAC-TCCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATACTC-GTGC
* * *
40813431 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCT-CATAAT-GTGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATACTCGTG-C
40813479 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
40813508 AGCTCACACG
Statistics
Matches: 139, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 71 0.51
47 42 0.30
48 23 0.17
49 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATACTCGTGC
Found at i:40813464 original size:94 final size:94
Alignment explanation
Indices: 40813244--40813510 Score: 287
Period size: 94 Copynumber: 2.8 Consensus size: 94
40813234 GGTAAGATGT
* * * * *
40813244 CGATGCCATGTCCTAGATACGGTCTTACACTGGC-TCATATCTTAAGTCGATGCCATGTCCCAGG
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTCATATCGT-GGTCGATG-CATGTCCCAGA
* * **
40813308 CATGGTCTTACACT-GACTATCCTCTCGTAGC
64 CAT-GTCTTACACTAGCCCATCCTCTAATAGC
* * *
40813339 TGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGTGGTCGATGCATGTCCCAGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTT-CATATCGTGGTCGATGCATGTCCCAGAC
40813402 ATGTCTTACACTAGCCCACTCCTC-AAT-GC
65 ATGTCTTACACTAGCCCA-TCCTCTAATAGC
* **
40813431 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCTCATAAT-GTGACCGATGCATGTCCCAGA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCT-TCAT-ATCGTGGTCGATGCATGTCCCAGA
40813495 CATGTCTTACACTAGC
64 CATGTCTTACACTAGC
40813511 TCACACGCGA
Statistics
Matches: 146, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
92 16 0.11
93 42 0.29
94 76 0.52
95 12 0.08
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTCATATCGTGGTCGATGCATGTCCCAGACA
TGTCTTACACTAGCCCATCCTCTAATAGC
Found at i:40815365 original size:55 final size:54
Alignment explanation
Indices: 40815257--40815511 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 54
40815247 ATTAGGGTTT
* * *
40815257 AAGGATACCATGTAAGACCATGCCAAGGCATTGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * *
40815312 AAGGATACCATTTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * * * * *
40815367 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGCTC-ATAAGGT
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * * *
40815420 AAGGATACCATGTAAGACCATGTCGACACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * * *
40815469 AAGGATACCACGTAAGACCATGACAAGTCATGGTAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
40815512 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
49 37 0.23
52 6 0.04
53 40 0.24
54 8 0.05
55 69 0.42
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:40815463 original size:108 final size:110
Alignment explanation
Indices: 40815264--40815464 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
40815254 TTTAAGGATA
* *
40815264 CCATGTAAGACCATGCCAAGGCATTGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATTTAAGA
1 CCATGTAAGACCATGCCAAGGCATTGCAATTGGTAAGGTCTCTAAGGCAAGGATACCATGTAAGA
* *
40815329 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAACACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
40815374 CCATGTAAGACCATGCCAAGGCA-TG-ACATTGGTGA-G-CTCATAAGGTAAGGATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATTGCA-ATTGGTAAGGTCTC-TAAGGCAAGGATACCATGTAA
* *
40815435 GACCATGTCGACACATGGCAATGGTAAGTT
64 GACCATGTCAACACATGGCAATGATAAGTT
40815465 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 2 0.02
108 47 0.58
109 9 0.11
110 23 0.28
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATTGCAATTGGTAAGGTCTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAACACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:40818178 original size:46 final size:46
Alignment explanation
Indices: 40818128--40818300 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
40818118 TGGTTGAGCA
40818128 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
40818174 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40818219 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40818267 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40818301 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40818284 original size:93 final size:93
Alignment explanation
Indices: 40818125--40818295 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40818115 GGATGGTTGA
* *
40818125 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40818190 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
40818218 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40818283 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40818296 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Done.