Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 266 of 349
Found at i:89005439 original size:54 final size:55
Alignment explanation
Indices: 89005233--89005439 Score: 210
Period size: 54 Copynumber: 3.8 Consensus size: 55
89005223 CTCGATTTTG
* ** * * *
89005233 AAATTACTAAAATACCCCT-GTAGGATAGAATTACCA-AAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTG-TAAAATTA-CAGAAAAACCCTCTAATTTGTA
* *
89005287 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAACACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-CAGAAAAACCCTCTAATTTGTA
* **
89005341 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAGTACCCTC-AATTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAAAACCCTCTAATTTGTA
* * **
89005395 AAATTACCAAAATACCCTTAATTTACAAAATTACAGAAAAACCCT
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAAAACCCT
89005440 TGACTTTCTA
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 129 0.96
55 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.28
Consensus pattern (55 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAAAACCCTCTAATTTGTA
Found at i:89005596 original size:27 final size:27
Alignment explanation
Indices: 89005542--89005619 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
89005532 AAATGACTAA
* * *
89005542 AATACCCCTAATA-GGTAAAAAGATCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
89005569 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
89005596 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
89005620 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:89006351 original size:20 final size:20
Alignment explanation
Indices: 89006326--89006412 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
89006316 GATATGATAT
*
89006326 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
89006346 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
89006366 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
89006386 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
89006406 ACATGAT
1 ACATGAT
89006413 GTATTCATAA
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:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:89006491 original size:26 final size:26
Alignment explanation
Indices: 89006462--89006597 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
89006452 GAGGAAGTGC
*
89006462 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
89006488 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
89006514 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
89006540 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
89006565 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
89006588 AAAAGAGGCT
1 AAAAG-GGCT
89006598 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 57 0.57
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:89006540 original size:52 final size:51
Alignment explanation
Indices: 89006462--89006597 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
89006452 GAGGAAGTGC
*
89006462 AAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
89006514 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
89006565 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
89006598 AGGCCTCCAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 25 0.30
52 35 0.43
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:89006789 original size:42 final size:42
Alignment explanation
Indices: 89006730--89006821 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
89006720 TAGTCTCCCC
* *** *
89006730 AAATGGGCTTGCATACATTCATTGGTTTTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
89006772 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
89006814 AAATGGGC
1 AAATGGGC
89006822 CTATGGGCCA
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:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:89006880 original size:31 final size:31
Alignment explanation
Indices: 89006845--89006923 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
89006835 CGTTTACAGT
89006845 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
89006876 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
89006907 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
89006924 ATATGTCAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:89015009 original size:53 final size:53
Alignment explanation
Indices: 89014826--89015080 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 53
89014816 ATTAGGGTTT
* * * * *
89014826 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTC-TAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * *
89014881 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
89014936 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
89014989 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTGTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGT-TCATAAGGC
* * * * *
89015038 AAGGATACCACGTGAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
89015081 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 38 0.23
52 8 0.05
53 43 0.26
54 9 0.05
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:89015032 original size:108 final size:110
Alignment explanation
Indices: 89014836--89015032 Score: 283
Period size: 108 Copynumber: 1.8 Consensus size: 110
89014826 AAGGATACCG
* *
89014836 TGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTCTAAGGTAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
89014901 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* ** **
89014946 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
89015008 ATGTCAAGACATGGCAATGGTAAGT
65 ATGTCAAGACATGGCAATGATAAGT
89015033 GTCAAAAGGA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.58
109 6 0.08
110 23 0.30
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGAAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:89015292 original size:16 final size:16
Alignment explanation
Indices: 89015271--89015301 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89015261 ATAAATTTTA
89015271 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
89015287 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
89015302 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:89030104 original size:18 final size:18
Alignment explanation
Indices: 89030081--89030115 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89030071 AAGGCTAAAC
89030081 AATGGTTGAACTCGTTAT
1 AATGGTTGAACTCGTTAT
89030099 AATGGTTGAACTCGTTA
1 AATGGTTGAACTCGTTA
89030116 CCACGAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATGGTTGAACTCGTTAT
Found at i:89030950 original size:42 final size:42
Alignment explanation
Indices: 89030873--89031164 Score: 381
Period size: 42 Copynumber: 6.7 Consensus size: 42
89030863 AGTCCTCGTC
*
89030873 TTTAGCGGCGCTTTTTTA-AAAAACGCCGCTAAAGACGAGGACT
1 TTTAGCGGCGC--TTTTAGAAAAACGCCGCTAAAGACCAGGACT
* *
89030916 TTTAGCGGCGCTTTTAGAAAAACGCCGTTGAAGACCAGGACT
1 TTTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCAGGACT
* *
89030958 TTTAGCAGCGTCTTTTTAAAACAAACGCCGCTAAAGACCAGGACT
1 TTTAGCGGCG-C-TTTTAGAA-AAACGCCGCTAAAGACCAGGACT
89031003 TTTAGCGGCGCTTTCTTTA-AAAAACGCCGCTAAAGACCAGGACT
1 TTTAGCGGCGC--T-TTTAGAAAAACGCCGCTAAAGACCAGGACT
* *
89031047 TTTAGCGGCGCCTTTAGAAAAACGCCGCTAAAGACAAGGACT
1 TTTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCAGGACT
* *
89031089 TTTAGCGGCGCTTTTAGAAAAACACCGCTAAAGAACAGGACT
1 TTTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCAGGACT
*
89031131 TTTAGCGGCGCTTGTTTTATAAAAACGCCGCTAA
1 TTTAGCGGCGC---TTTTAGAAAAACGCCGCTAA
89031165 TTTTCGTAAT
Statistics
Matches: 223, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
41 9 0.04
42 104 0.47
43 12 0.05
44 42 0.19
45 52 0.23
46 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCAGGACT
Found at i:89031063 original size:131 final size:127
Alignment explanation
Indices: 89030873--89031164 Score: 449
Period size: 131 Copynumber: 2.3 Consensus size: 127
89030863 AGTCCTCGTC
* *
89030873 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACGAGGACTTTTAGCGGCGCTTTTAGAAAAA
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCCTTTAGAAAAA
* * * * *
89030938 CGCCGTTGAAGACCAGGACTTTTAGCAGCGTCTTTTTAAAACAAACGCCGCTAAAGACCAGGACT
66 CGCCGCTAAAGACAAGGACTTTTAGCAGCG-C-TTTTAAAA-AAACACCGCTAAAGAACAGGACT
89031003 TTTAGCGGCGCTTTCTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCCTTTAGAAAA
1 TTTAGCGGCGCTTT-TTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCCTTTAGAAAA
* *
89031068 ACGCCGCTAAAGACAAGGACTTTTAGCGGCGCTTTTAGAAAAACACCGCTAAAGAACAGGACT
65 ACGCCGCTAAAGACAAGGACTTTTAGCAGCGCTTTTAAAAAAACACCGCTAAAGAACAGGACT
89031131 TTTAGCGGCGCTTGTTTTATAAAAACGCCGCTAA
1 TTTAGCGGCGCTT-TTTTA-AAAAACGCCGCTAA
89031165 TTTTCGTAAT
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
128 38 0.25
129 22 0.15
130 15 0.10
131 75 0.50
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (127 bp):
TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCCTTTAGAAAAA
CGCCGCTAAAGACAAGGACTTTTAGCAGCGCTTTTAAAAAAACACCGCTAAAGAACAGGACT
Found at i:89031484 original size:21 final size:21
Alignment explanation
Indices: 89031458--89031505 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
89031448 TTATGTTTTG
*
89031458 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
* *
89031479 CTCCGCCTCTCGCGCTGCTGT
1 CTCCGCCTCCCGCGCTGCTGC
89031500 CTCCGC
1 CTCCGC
89031506 TCTAAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.54, G:0.21, T:0.25
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:89036997 original size:9 final size:9
Alignment explanation
Indices: 89036983--89037053 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
89036973 ATGTATTAGT
89036983 TAAGTTATG
1 TAAGTTATG
89036992 TAAGTTGTTATG
1 TAA---GTTATG
*
89037004 TAAATTATG
1 TAAGTTATG
*
89037013 TAAGTTATA
1 TAAGTTATG
* *
89037022 TGAGTTATT
1 TAAGTTATG
89037031 TAAGTTATG
1 TAAGTTATG
* *
89037040 TAATTTATT
1 TAAGTTATG
89037049 TAAGT
1 TAAGT
89037054 AATGATCATA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
9 40 0.82
12 9 0.18
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:89037653 original size:240 final size:240
Alignment explanation
Indices: 89037231--89037715 Score: 900
Period size: 240 Copynumber: 2.0 Consensus size: 240
89037221 TTAAGGTTAT
89037231 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAGATT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAGATT
* *
89037296 CATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGTAA
66 CATCATACGTGGAGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
89037361 CCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
131 CCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
89037426 GTCAGCTATTGTTGTAATTTTAAT-GACAAGCAAGCTACATGGTA
196 GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* *
89037470 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTT-AGAT
89037535 TCATCATACGTGGAGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
65 TCATCATACGTGGAGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
89037600 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
130 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
89037665 GGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
195 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
89037711 ATAAA
1 ATAAA
89037716 ATTAATTCAT
Statistics
Matches: 238, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
239 58 0.24
240 155 0.65
241 25 0.11
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (240 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAGATT
CATCATACGTGGAGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAA
CCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAG
GTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:89041578 original size:48 final size:48
Alignment explanation
Indices: 89041476--89041609 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 48
89041466 GGGTTATTGT
**
89041476 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
* * * *
89041524 GTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCACAGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGA--CGA
*
89041572 GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
89041610 CTTGATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 12 0.16
47 13 0.18
48 28 0.38
49 12 0.16
50 8 0.11
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
Found at i:89044554 original size:63 final size:63
Alignment explanation
Indices: 89044428--89044555 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 63
89044418 GTAGGTAAGC
* * * * * **
89044428 AAGGCAAAAAAATGTAGTGAACCACCGATATTGTCAACCACATAGTTTATTGTAGAGTTAATT
1 AAGGCAAAAAAATGTAGTGAACCACCAATATTGTCAACCACATAGGTGATTGCAAAGAAAATT
* *
89044491 AAGGCAAAAAAATGTAGTGAACCACTAATATTGTCAACCACATGGGTGA-TGCAAAGAAAAATT
1 AAGGCAAAAAAATGTAGTGAACCACCAATATTGTCAACCACATAGGTGATTGCAAAG-AAAATT
89044554 AA
1 AA
89044556 AAGAATTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 5 0.09
63 50 0.91
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (63 bp):
AAGGCAAAAAAATGTAGTGAACCACCAATATTGTCAACCACATAGGTGATTGCAAAGAAAATT
Found at i:89048623 original size:28 final size:29
Alignment explanation
Indices: 89048574--89048658 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
89048564 TTAGTAACTT
* *
89048574 AAATGAAAATTTTTTAATAATTTAATGA-TA
1 AAATTAAAA-TTTTT-ATAATTTAATAATTA
** *
89048604 AAATTGTAATTTTTATAATTAAATAATTA
1 AAATTAAAATTTTTATAATTTAATAATTA
89048633 AAATTAAAATATATTTATAATTTAAT
1 AAATTAAAAT-T-TTTATAATTTAAT
89048659 CACCTGTGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
28 10 0.23
29 15 0.34
30 7 0.16
31 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
AAATTAAAATTTTTATAATTTAATAATTA
Found at i:89051782 original size:30 final size:30
Alignment explanation
Indices: 89051743--89051799 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
89051733 TTTTATAAGT
89051743 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
89051773 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
89051800 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:89052024 original size:14 final size:13
Alignment explanation
Indices: 89051974--89052023 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
89051964 TTTAAACCAA
* *
89051974 ACTTTTTAAAGGC
1 ACTTTTCAAAAGC
* * *
89051987 ATTTTTCCACAGC
1 ACTTTTCAAAAGC
89052000 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
89052013 ACTTTTCAAAA
1 ACTTTTCAAAA
89052024 ACATTGCCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:89058362 original size:40 final size:39
Alignment explanation
Indices: 89058298--89058588 Score: 325
Period size: 40 Copynumber: 7.3 Consensus size: 39
89058288 TCTTCGGAAT
* *
89058298 TTAG-CCGGATATAACTACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
*
89058337 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
89058377 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
89058417 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
** * *
89058457 TTAGCCTAGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
89058497 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
89058537 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
89058577 TTA-CCCGGATAT
1 TTAGCCCGGATAT
89058589 CATTCAAATG
Statistics
Matches: 209, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.00
39 17 0.08
40 181 0.87
41 10 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:89058425 original size:80 final size:80
Alignment explanation
Indices: 89058317--89058588 Score: 465
Period size: 80 Copynumber: 3.4 Consensus size: 80
89058307 TATAACTACA
* * *
89058317 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
89058382 CCGGATAAAATCACT
66 CCGGATAAAATCACT
*
89058397 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
**
89058462 CTAGATAAAATCACT
66 CCGGATAAAATCACT
*
89058477 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
89058542 CCGGATAAAATCACT
66 CCGGATAAAATCACT
*
89058557 AGCACAATTGCCTTCGGGACTT-ACCCGGATAT
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATAT
89058589 CATTCAAATG
Statistics
Matches: 182, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 9 0.05
80 173 0.95
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:89062641 original size:13 final size:13
Alignment explanation
Indices: 89062625--89062657 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89062615 TTTGATTAAA
*
89062625 TTAGTTAATTAGT
1 TTAGATAATTAGT
89062638 TTAGATAATTAGT
1 TTAGATAATTAGT
89062651 TTA-ATAA
1 TTAGATAA
89062658 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:89068009 original size:6 final size:6
Alignment explanation
Indices: 89067998--89068044 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
89067988 CCTCTTATTT
* * *
89067998 TTTTTA TTTTTA TTTTTA TTTTTA TGTTTA TGTTTA TGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
89068045 CATTATAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:89070969 original size:13 final size:13
Alignment explanation
Indices: 89070953--89070985 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89070943 TTTGATTAAA
*
89070953 TTAGTTAATTAGT
1 TTAGATAATTAGT
89070966 TTAGATAATTAGT
1 TTAGATAATTAGT
89070979 TTA-ATAA
1 TTAGATAA
89070986 ATAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:89073478 original size:43 final size:43
Alignment explanation
Indices: 89073430--89073657 Score: 334
Period size: 43 Copynumber: 5.3 Consensus size: 43
89073420 TAAAACAACT
* *
89073430 CCGCTAATA-GTCATGACATTTAGCGGCGCTTTTCCCACAGACG
1 CCGCTAA-AGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
89073473 CCGCTAAGGGTCATGACATTTAGCGGCGCTTTTCCCACAAACG
1 CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACG
*
89073516 CCGCTAAAGGTCATGACCTTTAGCGGTGC-TTTCCCACAAACG
1 CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
89073558 CCTCCAAAGGTCATGACCTGTAGCGGCGCTTTTCCCACAAACG
1 CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
89073601 CCGCTAAAGGTCATGACCTTTAGCAGCGCTTTTCACACAAACG
1 CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACG
*
89073644 CCGCTAAAAGTCAT
1 CCGCTAAAGGTCAT
89073658 AAAATTTAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 38 0.23
43 130 0.77
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (43 bp):
CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:89073582 original size:85 final size:86
Alignment explanation
Indices: 89073430--89073657 Score: 325
Period size: 85 Copynumber: 2.7 Consensus size: 86
89073420 TAAAACAACT
* * * * *
89073430 CCGCTAATA-GTCATGACATTTAGCGGCGCTTTTCCCACAGACGCCGCTAAGGGTCATGACATTT
1 CCGCTAA-AGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCCAAAGGTCATGACATGT
89073494 AGCGGCGCTTTTCCCACAAACG
65 AGCGGCGCTTTTCCCACAAACG
* * *
89073516 CCGCTAAAGGTCATGACCTTTAGCGGTGC-TTTCCCACAAACGCCTCCAAAGGTCATGACCTGTA
1 CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCCAAAGGTCATGACATGTA
89073580 GCGGCGCTTTTCCCACAAACG
66 GCGGCGCTTTTCCCACAAACG
* * * *
89073601 CCGCTAAAGGTCATGACCTTTAGCAGCGCTTTTCACACAAACGCCGCTAAAAGTCAT
1 CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCCAAAGGTCAT
89073658 AAAATTTAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
85 78 0.62
86 48 0.38
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (86 bp):
CCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCCAAAGGTCATGACATGTA
GCGGCGCTTTTCCCACAAACG
Found at i:89081125 original size:21 final size:21
Alignment explanation
Indices: 89081101--89081154 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
89081091 CTTAACCCTT
* *
89081101 AACCCCTAAGCCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
* **
89081122 AACCCTTAAACCATAAACCAT
1 AACCCCTAAACCATAAACCCC
*
89081143 AATCCCTAAACC
1 AACCCCTAAACC
89081155 CATGATCCCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.17
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:89081131 original size:14 final size:15
Alignment explanation
Indices: 89081093--89081133 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
89081083 ACCTAACACT
89081093 TAACCCTT-AACCCC
1 TAACCCTTAAACCCC
*
89081107 TAAGCCTTAAACCCC
1 TAACCCTTAAACCCC
89081122 -AACCCTTAAACC
1 TAACCCTTAAACC
89081134 ATAAACCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.34, C:0.44, G:0.02, T:0.20
Consensus pattern (15 bp):
TAACCCTTAAACCCC
Found at i:89081157 original size:15 final size:15
Alignment explanation
Indices: 89081135--89081169 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
89081125 CCTTAAACCA
89081135 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
*
89081149 TAAACCCATGATCCC
1 TAAACCCATAATCCC
89081164 TAAACC
1 TAAACC
89081170 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:89081344 original size:7 final size:7
Alignment explanation
Indices: 89081332--89081379 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
89081322 ACTAATTAAT
89081332 CTAAACC
1 CTAAACC
89081339 CTAAACTC
1 CTAAAC-C
*
89081347 CTAATCC
1 CTAAACC
89081354 CTAAACC
1 CTAAACC
*
89081361 TTAAACC
1 CTAAACC
* *
89081368 GTAAATC
1 CTAAACC
89081375 CTAAA
1 CTAAA
89081380 ACATGAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:89081451 original size:25 final size:25
Alignment explanation
Indices: 89081423--89081470 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
89081413 AACACTTAAA
*
89081423 CCTTCAACCACAA-CCCTTAAACCAC
1 CCTTAAACCACAATCCC-TAAACCAC
*
89081448 CCTTAAACCATAATCCCTAAACC
1 CCTTAAACCACAATCCCTAAACC
89081471 CATAATCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAATCCCTAAACCAC
Found at i:89081473 original size:15 final size:15
Alignment explanation
Indices: 89081451--89081485 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
89081441 AAACCACCCT
*
89081451 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
89081465 TAAACCCATAATCCA
1 TAAACCCATAATCCA
89081480 TAAACC
1 TAAACC
89081486 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:89081490 original size:22 final size:21
Alignment explanation
Indices: 89081453--89081535 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 21
89081443 ACCACCCTTA
* *
89081453 AACCATAATCCCTAAACCCAT
1 AACCATAAACCTTAAACCCAT
***
89081474 AATCCATAAACCTTAAAATAAT
1 AA-CCATAAACCTTAAACCCAT
* *
89081496 AACTCATAAACATTAAACCCTT
1 AAC-CATAAACCTTAAACCCAT
* *
89081518 AACCATATACCGTAAACC
1 AACCATAAACCTTAAACC
89081536 TAAACTATAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
21 15 0.32
22 32 0.68
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (21 bp):
AACCATAAACCTTAAACCCAT
Found at i:89081977 original size:41 final size:41
Alignment explanation
Indices: 89081889--89081981 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
89081879 TAATTTTTTT
* * *
89081889 GCGGCG-TTTTTTGTAAAGCGCTGCTAAAGATCAAGCATTA
1 GCGGCGTTTTTTTGAAAAGCGCCGCTAAAGATCAACCATTA
* * * *
89081929 ACAGCGTTTTTTTGAAAAGCGCCGCTAAAGTTGAACC-TATA
1 GCGGCGTTTTTTTGAAAAGCGCCGCTAAAGATCAACCAT-TA
89081970 GCGGCGTTTTTT
1 GCGGCGTTTTTT
89081982 AATAAGCGTC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
40 5 0.12
41 37 0.88
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (41 bp):
GCGGCGTTTTTTTGAAAAGCGCCGCTAAAGATCAACCATTA
Found at i:89082037 original size:39 final size:39
Alignment explanation
Indices: 89081936--89082059 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 39
89081926 TTAACAGCGT
* * * *
89081936 TTTTTTGAAAAGCGCCGCTAAAG-TTGAACCTATAGCGGCG
1 TTTTTT-AAAAGCGCCGCTAATGCTCG-ATCTTTAGCGGCG
* * *
89081976 TTTTTTAATAAGCGTCGTTAATGCTCGATCTTTAGCGGCA
1 TTTTTTAA-AAGCGCCGCTAATGCTCGATCTTTAGCGGCG
* *
89082016 TTTTTTAAAAGCGCCGCTAATGCTCGTTCTTTAGTGGCG
1 TTTTTTAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCG
89082055 TTTTT
1 TTTTT
89082060 CATTCAAACG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 33 0.47
40 35 0.50
41 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (39 bp):
TTTTTTAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCG
Found at i:89086644 original size:40 final size:40
Alignment explanation
Indices: 89086589--89086832 Score: 305
Period size: 40 Copynumber: 6.1 Consensus size: 40
89086579 TGGATGATAA
* *
89086589 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTA-TAT
*
89086629 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
89086669 CCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
89086709 CTGGGCTAAGTCCCGAAGGCATTTGTC-CGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTG-CGCGAGTTACTATAT
*
89086749 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * * * * * *
89086789 CCCGGCTATGTTCTGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
89086829 CCGG
1 CCGG
89086833 TTCAATCCCG
Statistics
Matches: 181, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 178 0.98
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:89096422 original size:28 final size:28
Alignment explanation
Indices: 89096391--89096444 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
89096381 TCCACAAAGG
*
89096391 CTTCCATTTTATTAGAGCACCAAAAATT
1 CTTCCATTTTATTAAAGCACCAAAAATT
*
89096419 CTTCCATTTTATTAAATCACCAAAAA
1 CTTCCATTTTATTAAAGCACCAAAAA
89096445 CGCATCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (28 bp):
CTTCCATTTTATTAAAGCACCAAAAATT
Found at i:89096452 original size:28 final size:28
Alignment explanation
Indices: 89096393--89096456 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
89096383 CACAAAGGCT
* ** *
89096393 TCCATTTTATTAGAGCACCAAAAATTCT
1 TCCATTTTATTAAAGCACCAAAAACGCA
*
89096421 TCCATTTTATTAAATCACCAAAAACGCA
1 TCCATTTTATTAAAGCACCAAAAACGCA
89096449 TCCATTTT
1 TCCATTTT
89096457 GTGGTGCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (28 bp):
TCCATTTTATTAAAGCACCAAAAACGCA
Found at i:89102304 original size:27 final size:27
Alignment explanation
Indices: 89102258--89102309 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
89102248 GTCATACATA
**
89102258 TCATAGGGGTATGTCAGTCATTTTACC
1 TCATAGGGGTATAACAGTCATTTTACC
*
89102285 TCATAGGGGTATAACCGTCATTTTA
1 TCATAGGGGTATAACAGTCATTTTA
89102310 TCAGTATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCATTTTACC
Found at i:89109238 original size:27 final size:27
Alignment explanation
Indices: 89109207--89109384 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89109197 TAAATTGTAC
89109207 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
89109234 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89109260 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
89109288 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
89109316 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89109343 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
89109370 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89109385 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:89109321 original size:82 final size:81
Alignment explanation
Indices: 89109208--89109363 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89109198 AAATTGTACA
* *
89109208 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
89109272 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89109289 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
89109354 TGCGAGTTGA
65 TGCGAATTGA
89109364 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89109375 original size:82 final size:81
Alignment explanation
Indices: 89109204--89109384 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
89109194 GATTAAATTG
* *
89109204 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89109269 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89109285 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89109349 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89109367 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89109385 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:89111900 original size:52 final size:52
Alignment explanation
Indices: 89111817--89111920 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
89111807 AGGATGGTTA
89111817 CTTCGGGCCGCACTGGGCCGAAAGGCCCCATGTGGGCCCAATAAGCCTACGG
1 CTTCGGGCCGCACTGGGCCGAAAGGCCCCATGTGGGCCCAATAAGCCTACGG
**
89111869 CTTCGGGCCGCACTGGGCCGAAAGGGGCCATGTGGGCCCAATAAGCCTACGG
1 CTTCGGGCCGCACTGGGCCGAAAGGCCCCATGTGGGCCCAATAAGCCTACGG
89111921 GCCCAATTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.13
Consensus pattern (52 bp):
CTTCGGGCCGCACTGGGCCGAAAGGCCCCATGTGGGCCCAATAAGCCTACGG
Found at i:89112121 original size:27 final size:27
Alignment explanation
Indices: 89112090--89112331 Score: 277
Period size: 27 Copynumber: 9.0 Consensus size: 27
89112080 TAGAATACTT
**
89112090 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
89112117 TAGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
*
89112144 TTGTTTATAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* *
89112171 TAGTTTGTAAAATTACCAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* *
89112198 TGGTTTACAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * **
89112225 TGGTTTGTAAAATTACTAAAATACCAT
1 TAGTTTATAAAATTACCAAAATACCCC
*
89112252 TTGTTTATAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* *
89112279 TAATTTGTAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * **
89112306 TAATTTGTGAAATTACTGAAATACCC
1 TAGTTTATAAAATTACCAAAATACCC
89112332 TCGACCTGTA
Statistics
Matches: 183, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:89112286 original size:108 final size:108
Alignment explanation
Indices: 89112092--89112304 Score: 390
Period size: 108 Copynumber: 2.0 Consensus size: 108
89112082 GAATACTTTA
* *
89112092 GTTTACCAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAAT
*
89112157 TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
66 TACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTG
*
89112200 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAAT
89112265 TACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC
66 TACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC
89112305 CTAATTTGTG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (108 bp):
GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTTGTTTATAAAAT
TACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTG
Found at i:89112331 original size:54 final size:54
Alignment explanation
Indices: 89112099--89112304 Score: 349
Period size: 54 Copynumber: 3.8 Consensus size: 54
89112089 TTAGTTTACC
*
89112099 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTTGTTTATA
* *
89112153 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTTGTTTATA
* * *
89112207 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTTGTTTATA
*
89112261 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
89112305 CTAATTTGTG
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 140 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTTGTTTATA
Found at i:89112344 original size:81 final size:81
Alignment explanation
Indices: 89112099--89112402 Score: 281
Period size: 81 Copynumber: 3.8 Consensus size: 81
89112089 TTAGTTTACC
* * * ** * *
89112099 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
*
89112164 ATACCC-CTAGTTTGTA
66 ATACCCTCGA-TTTGTA
* ** ** **
89112180 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
* * *
89112245 ATACCATTTG-TTTATA
66 ATACC-CTCGATTTGTA
* *
89112261 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
**
89112326 ATACCCTCGACCTGTA
66 ATACCCTCGATTTGTA
*** * * * * **
89112342 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTACAAAATTAC
1 AAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTAC
89112403 CGTTTTACCC
Statistics
Matches: 182, Mismatches: 37, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
80 6 0.03
81 176 0.97
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
ATACCCTCGATTTGTA
Found at i:89112384 original size:27 final size:26
Alignment explanation
Indices: 89112099--89112386 Score: 220
Period size: 27 Copynumber: 10.7 Consensus size: 26
89112089 TTAGTTTACC
*
89112099 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* * *
89112126 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC--CGATTTGTA
*
89112153 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* * **
89112180 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-CGATTTGTA
*
89112207 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* ** *
89112234 AAATTACTAAAATACCATTTG-TTTATA
1 AAATTACCAAAATACC--CCGATTTGTA
*
89112261 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* *
89112288 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCC-GATTTGTA
** **
89112315 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
*** *
89112342 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
*
89112369 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
89112387 CAATTTACAA
Statistics
Matches: 212, Mismatches: 38, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.00
27 209 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGATTTGTA
Found at i:89112446 original size:27 final size:27
Alignment explanation
Indices: 89112416--89112634 Score: 257
Period size: 27 Copynumber: 8.1 Consensus size: 27
89112406 TTTACCCTTG
*
89112416 ATTATCGAAATACCCTTGTAGGGTAGA
1 ATTATCGAAATACCCCTGTAGGGTAGA
89112443 ATTA-CTGAAATACCCCTGTAGGGTAGA
1 ATTATC-GAAATACCCCTGTAGGGTAGA
* *
89112470 ATTATTGAAATACCCCTGTAAGGTAGA
1 ATTATCGAAATACCCCTGTAGGGTAGA
*
89112497 ATTATCGAAATACCCCTATAGGGTAGA
1 ATTATCGAAATACCCCTGTAGGGTAGA
**
89112524 ATTATTAAAATACCCCTGTAGGGTAGA
1 ATTATCGAAATACCCCTGTAGGGTAGA
* *
89112551 ATTACCGAAATACCCTTGTAGGGTAGA
1 ATTATCGAAATACCCCTGTAGGGTAGA
* * *
89112578 AATA-CTAAAATA-CCCTATAGGGTAGA
1 ATTATC-GAAATACCCCTGTAGGGTAGA
* * *
89112604 ATTA-CGAAGATACCCTTGTGGGGTAAA
1 ATTATCGAA-ATACCCCTGTAGGGTAGA
89112631 ATTA
1 ATTA
89112635 CAATTTTGCC
Statistics
Matches: 164, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.01
26 21 0.13
27 141 0.86
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
ATTATCGAAATACCCCTGTAGGGTAGA
Found at i:89113114 original size:22 final size:21
Alignment explanation
Indices: 89113062--89113126 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
89113052 TTAAAGCCTT
* *
89113062 CTGATTATGGCTTTGTGTCAA
1 CTGATTATGGCTCTGTGCCAA
*
89113083 CTTATATATGGCTCTGTGCCAA
1 CTGAT-TATGGCTCTGTGCCAA
* *
89113105 CCTGATTATGGCTGTATGCCAA
1 -CTGATTATGGCTCTGTGCCAA
89113127 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.11
22 28 0.78
23 4 0.11
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (21 bp):
CTGATTATGGCTCTGTGCCAA
Found at i:89113315 original size:27 final size:27
Alignment explanation
Indices: 89113285--89113386 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
89113275 ATTCTGTTAA
* *
89113285 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
89113312 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
89113339 GTGGCTCTGCTACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
89113366 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
89113387 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:89113561 original size:6 final size:6
Alignment explanation
Indices: 89113523--89113611 Score: 67
Period size: 6 Copynumber: 14.3 Consensus size: 6
89113513 TTGCATTCAC
* *
89113523 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
89113573 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
89113612 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
5 4 0.06
6 49 0.74
7 11 0.17
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89113572 original size:31 final size:31
Alignment explanation
Indices: 89113523--89113627 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
89113513 TTGCATTCAC
*
89113523 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* * *
89113555 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
89113586 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
89113616 TTTCTTATTCTG
1 ATTCTGATTCTG
89113628 TAATGGGTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
30 16 0.26
31 37 0.60
32 9 0.15
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:89122112 original size:12 final size:12
Alignment explanation
Indices: 89122095--89122119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89122085 AAAAAATGTA
89122095 AAAATCATCAAG
1 AAAATCATCAAG
89122107 AAAATCATCAAG
1 AAAATCATCAAG
89122119 A
1 A
89122120 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:89142057 original size:29 final size:28
Alignment explanation
Indices: 89142021--89142098 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
89142011 TCATGAGATT
89142021 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
89142051 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
89142078 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
89142099 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:89142357 original size:171 final size:174
Alignment explanation
Indices: 89142051--89142375 Score: 575
Period size: 171 Copynumber: 1.9 Consensus size: 174
89142041 AAATTGTACA
89142051 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
89142116 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
89142181 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
89142225 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTA-TAA-CATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
89142288 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
89142352 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
89142376 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
171 81 0.56
172 11 0.08
173 3 0.02
174 50 0.34
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:89150193 original size:29 final size:28
Alignment explanation
Indices: 89150157--89150234 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
89150147 TCATGAGATT
89150157 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
89150187 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
89150214 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
89150235 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:89150501 original size:173 final size:174
Alignment explanation
Indices: 89150187--89150513 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
89150177 AAATTGTACA
* *
89150187 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
89150252 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
89150317 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
89150361 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
89150426 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
89150490 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
89150514 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:89163295 original size:57 final size:57
Alignment explanation
Indices: 89163227--89163350 Score: 169
Period size: 57 Copynumber: 2.2 Consensus size: 57
89163217 CATTTATAGG
* * *
89163227 CCATTTTCATTTTCATTTAGGAGAAAAGCACATTCATTTCTAAATGATTT-CATTTCT
1 CCATTTTCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAAT-ATTTACATTTCT
* * *
89163284 CCATTTTCATTTTCATTTTGGAGAAGACCATAATCATTTCCAAATATTTCACATTTCT
1 CCATTTTCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATATTT-ACATTTCT
89163342 CCATTTTCA
1 CCATTTTCA
89163351 CCATTTCTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 4 0.07
57 39 0.66
58 16 0.27
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (57 bp):
CCATTTTCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATATTTACATTTCT
Found at i:89167619 original size:27 final size:25
Alignment explanation
Indices: 89167559--89167650 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 25
89167549 ATACCCCCAG
* *
89167559 TTGTAAAATTACCAAAGTACCCCTGGT
1 TTGTAAAATTACCAAA-TACCTC-GAT
*
89167586 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATA-CCTCGAT
*
89167613 TTGTAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTA-CCAAATA-CCTCGA-T
*
89167640 TTGCAAAATTA
1 TTGTAAAATTA
89167651 TTGAAATGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 45 0.83
28 8 0.15
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (25 bp):
TTGTAAAATTACCAAATACCTCGAT
Found at i:89167651 original size:27 final size:27
Alignment explanation
Indices: 89167590--89167701 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
89167580 CCTGGTTTAT
* * * *
89167590 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGC
89167617 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATCGAAATACCCTCGA-TTTGC
* * ** *
89167644 AAAATTATTGAAATGCCCTCGACATGT
1 AAAATTATCGAAATACCCTCGATTTGC
* *
89167671 AAAATTATC-AAAGTACCCTCGAATTAC
1 AAAATTATCGAAA-TACCCTCGATTTGC
89167698 AAAA
1 AAAA
89167702 ATTACTATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
26 4 0.06
27 62 0.93
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGC
Found at i:89167722 original size:27 final size:27
Alignment explanation
Indices: 89167684--89167987 Score: 385
Period size: 27 Copynumber: 11.2 Consensus size: 27
89167674 ATTATCAAAG
* * *
89167684 TACCCTCGAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AGAATTACTGTTT
* *
89167712 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
89167739 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
89167766 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
89167793 TACCCTCGAATTACAAAAATTATTGTTT
1 TACCCTCGATTTAC-AGAATTACTGTTT
*
89167821 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
89167848 TACCCTCGATTTATAGAATTAGC-ATTT
1 TACCCTCGATTTACAGAATTA-CTGTTT
* *
89167875 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
89167902 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
89167929 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
89167956 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
89167983 TACCC
1 TACCC
89167988 CTAGGGTGTT
Statistics
Matches: 246, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.00
27 210 0.85
28 35 0.14
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:89167745 original size:109 final size:109
Alignment explanation
Indices: 89167630--89167976 Score: 310
Period size: 109 Copynumber: 3.2 Consensus size: 109
89167620 ATTATCGAAA
* * *
89167630 TACCCTC-AGTTTGCAAAATTATTGAAATGCCCTCGACATGTA-A-AATTATCAAAGTACCCTCG
1 TACCCTCGA-TTTACAAAATTATTGAAATACCCTCG--ATGTACAGAATTACCAAAGTACCCTCG
89167692 AATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTT
63 AATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTT
* * *** * ****
89167739 TACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAAT
1 TACCCTCGATTTACAAAATTATTGAAATACCCTCGATGTACAGAATTACCAAAGTACCCTCGAAT
* * * * *
89167804 TACAAAAATTATTGTTTTACCCTCGATTTATAGAATTACTGTTT
66 TACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTT
* * ** * * ****
89167848 TACCCTCGATTTATAGAATTA--GCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTATTG-A-AATACCCTCGATGTACAGAATTACCAAAGTACCCTCGA
* * * **
89167911 TTTAC-AAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
64 ATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTT
89167956 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTA
89167977 CCATTTTACC
Statistics
Matches: 207, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
107 5 0.02
108 57 0.28
109 144 0.70
110 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (109 bp):
TACCCTCGATTTACAAAATTATTGAAATACCCTCGATGTACAGAATTACCAAAGTACCCTCGAAT
TACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTT
Found at i:89168010 original size:81 final size:81
Alignment explanation
Indices: 89167684--89167987 Score: 428
Period size: 81 Copynumber: 3.7 Consensus size: 81
89167674 ATTATCAAAG
* * * * * *
89167684 TACCCTCGAATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTAC-AGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGAT
*
89167749 TTATAGAATTATTGTTT
65 TTATAGAATTACTGTTT
* * ***
89167766 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGAATTACAAAAATTATTGTTTTACCCTCGAT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC-AAAATTACCATTTTACCCTCGAT
89167831 TTATAGAATTACTGTTT
65 TTATAGAATTACTGTTT
* * *
89167848 TACCCTCGATTTATAGAATTAGCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* *
89167913 TACAAAATTACTGTTT
66 TATAGAATTACTGTTT
*
89167929 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
89167988 CTAGGGTGTT
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 113 0.57
82 86 0.43
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TATAGAATTACTGTTT
Found at i:89168268 original size:27 final size:26
Alignment explanation
Indices: 89168224--89168275 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89168214 CTCGCTGCAA
*
89168224 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
89168251 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
89168276 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:89168313 original size:67 final size:68
Alignment explanation
Indices: 89168205--89168344 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
89168195 AAGGAAGCAT
* * *
89168205 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
89168269 ATA
66 ATA
* ** *
89168272 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGTTACATATATATCTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACA-ATATATCTGTTCTGGTGACCTAGCCAC
89168337 AATA
65 AATA
89168341 TCTG
1 TCTG
89168345 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 33 0.52
69 31 0.48
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (68 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:89168364 original size:27 final size:26
Alignment explanation
Indices: 89168312--89168371 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
89168302 CGTTACATAT
*
89168312 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
89168338 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
89168365 ATATCTG
1 ATATCTG
89168372 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:89168521 original size:25 final size:25
Alignment explanation
Indices: 89168493--89168587 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 25
89168483 CATTCACATT
* *
89168493 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
* *
89168518 CTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTG------ATTCTGTTACCTAATA
*
89168549 CTGATTCTGATTCTGTTACCTCATA
1 CTGATTCTGATTCTGTTACCTAATA
89168574 CTGATTCTGATTCT
1 CTGATTCTGATTCT
89168588 AATTCTGTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 35 0.61
31 22 0.39
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:89168525 original size:31 final size:30
Alignment explanation
Indices: 89168490--89168622 Score: 141
Period size: 31 Copynumber: 4.5 Consensus size: 30
89168480 TTGCATTCAC
* *
89168490 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCT-ATACTG
*
89168521 ATTCTGATTCTAATTCTGTCACC--TA---
1 ATTCTGATTCTGATTCTGTCACCTATACTG
*
89168546 ATTCTGATTCTGATTCTGTTACCTCATACTG
1 ATTCTGATTCTGATTCTGTCACCT-ATACTG
* *
89168577 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCT-ATACTG
*
89168608 ATTCTGATTATGATT
1 ATTCTGATTCTGATT
89168623 ATGATTCTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
25 21 0.25
28 4 0.05
31 60 0.71
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTATACTG
Found at i:89168529 original size:6 final size:6
Alignment explanation
Indices: 89168490--89168630 Score: 74
Period size: 6 Copynumber: 22.8 Consensus size: 6
89168480 TTGCATTCAC
* * *
89168490 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
89168539 -TCACCTA ATTCTG ATTCTG ATTCTG -TTACCTC ATACTG ATTCTG ATTCTA
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
89168589 ATTCTG -TCACCTA ATTCTG ATTCTG ATTATG ATTATG ATTCT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
89168631 ATAATGGGCT
Statistics
Matches: 101, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
5 6 0.06
6 82 0.81
7 9 0.09
8 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:89168576 original size:56 final size:56
Alignment explanation
Indices: 89168490--89168616 Score: 236
Period size: 56 Copynumber: 2.3 Consensus size: 56
89168480 TTGCATTCAC
* *
89168490 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTACCTCATACTGATTCTGATTCTAATTCTGTCACCTA
89168546 ATTCTGATTCTGATTCTGTTACCTCATACTGATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTACCTCATACTGATTCTGATTCTAATTCTGTCACCTA
89168602 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
89168617 ATGATTATGA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.46
Consensus pattern (56 bp):
ATTCTGATTCTGATTCTGTTACCTCATACTGATTCTGATTCTAATTCTGTCACCTA
Found at i:89168605 original size:25 final size:25
Alignment explanation
Indices: 89168521--89168612 Score: 112
Period size: 25 Copynumber: 3.4 Consensus size: 25
89168511 CCTGATACTG
89168521 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTAATTCTGTCACCTA
* *
89168546 ATTCTGATTCTGATTCTGTTACCTCATA
1 ATTCTGATTCTAATTCTGTCA-C-C-TA
89168574 CTGATTCTGATTCTAATTCTGTCACCTA
1 ---ATTCTGATTCTAATTCTGTCACCTA
89168602 ATTCTGATTCT
1 ATTCTGATTCT
89168613 GATTATGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 30 0.53
26 1 0.02
27 1 0.02
28 4 0.07
29 1 0.02
30 1 0.02
31 19 0.33
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTA
Found at i:89174066 original size:25 final size:25
Alignment explanation
Indices: 89174037--89174277 Score: 349
Period size: 25 Copynumber: 9.6 Consensus size: 25
89174027 TTGATAAATC
89174037 GCTCTTAATGA-TTCCGGTTAAATTT
1 GCTCTTAAT-ATTTCCGGTTAAATTT
*
89174062 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89174087 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89174112 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* * **
89174137 GCTCTTAATAATTCCGATTACGTTT
1 GCTCTTAATATTTCCGGTTAAATTT
* * *
89174162 TCTCTTAATATTTCTGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89174187 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89174212 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89174237 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89174262 GCCCTTATTATTTCCG
1 GCTCTTAATATTTCCG
89174278 AATAAGTTAC
Statistics
Matches: 191, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
24 1 0.01
25 190 0.99
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89174112 original size:50 final size:50
Alignment explanation
Indices: 89174037--89174277 Score: 392
Period size: 50 Copynumber: 4.8 Consensus size: 50
89174027 TTGATAAATC
*
89174037 GCTCTTAATGATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
89174087 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
* ** * *
89174137 GCTCTTAATAATTCCGATTACGTTTTCTCTTAATATTTCTGGTAAAATTT
1 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
*
89174187 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
* * *
89174237 GCTCTTAATATTTCCGGTTAAATTTGCCCTTATTATTTCCG
1 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCG
89174278 AATAAGTTAC
Statistics
Matches: 176, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 176 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (50 bp):
GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTT
Found at i:89174236 original size:12 final size:12
Alignment explanation
Indices: 89174198--89174261 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
89174188 CTCTTAATAA
89174198 TTCCGGTTAAAT
1 TTCCGGTTAAAT
* **
89174210 TTGCTCTTAATAT
1 TTCCGGTTAA-AT
89174223 TTCCGGTTAAAT
1 TTCCGGTTAAAT
* **
89174235 TTGCTCTTAATAT
1 TTCCGGTTAA-AT
89174248 TTCCGGTTAAAT
1 TTCCGGTTAAAT
89174260 TT
1 TT
89174262 GCCCTTATTA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
12 20 0.53
13 18 0.47
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (12 bp):
TTCCGGTTAAAT
Found at i:89176218 original size:74 final size:74
Alignment explanation
Indices: 89176103--89176265 Score: 263
Period size: 74 Copynumber: 2.2 Consensus size: 74
89176093 TTGATAAATC
*
89176103 GCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTTGCTCTTAATAATTCC
1 GCTCTTAAT-ATTTCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTTGCTCTTAATAATTCC
89176168 GATTAAATTT
65 GATTAAATTT
* * *
89176178 TCTCTTAATATTTCGGTTAAATTTGCTCTTAATATTTCCGGTTAAATTTGCTCTTAATATTTCCG
1 GCTCTTAATATTTCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTTGCTCTTAATAATTCCG
89176243 ATTAAATTT
66 ATTAAATTT
* *
89176252 GCCCTTATTATTTC
1 GCTCTTAATATTTC
89176266 TGAATAAGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 73 0.90
75 8 0.10
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (74 bp):
GCTCTTAATATTTCGGTTAAATTTGCTCTTAATATTTCCGGTAAAATTTGCTCTTAATAATTCCG
ATTAAATTT
Found at i:89176263 original size:25 final size:25
Alignment explanation
Indices: 89176103--89176265 Score: 247
Period size: 25 Copynumber: 6.6 Consensus size: 25
89176093 TTGATAAATC
*
89176103 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89176128 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89176153 GCTCTTAATAATTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89176178 TCTCTTAATATTT-CGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89176202 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89176227 GCTCTTAATATTTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89176252 GCCCTTATTATTTC
1 GCTCTTAATATTTC
89176266 TGAATAAGTT
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
24 22 0.18
25 103 0.82
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89178124 original size:25 final size:25
Alignment explanation
Indices: 89178095--89178258 Score: 256
Period size: 25 Copynumber: 6.6 Consensus size: 25
89178085 TTGATAAATC
*
89178095 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89178120 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89178145 GCTCTTAATAATTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89178170 TCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89178195 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89178220 GCTCTTAATATTTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89178245 GCCCTTATTATTTC
1 GCTCTTAATATTTC
89178259 TGAATAAGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 127 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89178244 original size:12 final size:12
Alignment explanation
Indices: 89178106--89178244 Score: 71
Period size: 12 Copynumber: 11.2 Consensus size: 12
89178096 CTCTTAATAA
*
89178106 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89178118 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
* *
89178131 TTCCGGTAAAAT
1 TTCCGCTTAAAT
* * *
89178143 TTGCTCTTAATAA
1 TTCCGCTTAA-AT
*
89178156 TTCCGATTAAAT
1 TTCCGCTTAAAT
* *
89178168 TTTCTCTTAATAT
1 TTCCGCTTAA-AT
*
89178181 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89178193 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89178206 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89178218 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89178231 TTCCGATTAAAT
1 TTCCGCTTAAAT
89178243 TT
1 TT
89178245 GCCCTTATTA
Statistics
Matches: 88, Mismatches: 34, Indels: 10
0.67 0.26 0.08
Matches are distributed among these distances:
12 45 0.51
13 43 0.49
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (12 bp):
TTCCGCTTAAAT
Found at i:89180117 original size:25 final size:25
Alignment explanation
Indices: 89180088--89180251 Score: 256
Period size: 25 Copynumber: 6.6 Consensus size: 25
89180078 TTGATAAATC
*
89180088 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89180113 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89180138 GCTCTTAATAATTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89180163 TCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89180188 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89180213 GCTCTTAATATTTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89180238 GCCCTTATTATTTC
1 GCTCTTAATATTTC
89180252 TGAATAAGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 127 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89180237 original size:12 final size:12
Alignment explanation
Indices: 89180099--89180237 Score: 71
Period size: 12 Copynumber: 11.2 Consensus size: 12
89180089 CTCTTAATAA
*
89180099 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89180111 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
* *
89180124 TTCCGGTAAAAT
1 TTCCGCTTAAAT
* * *
89180136 TTGCTCTTAATAA
1 TTCCGCTTAA-AT
*
89180149 TTCCGATTAAAT
1 TTCCGCTTAAAT
* *
89180161 TTTCTCTTAATAT
1 TTCCGCTTAA-AT
*
89180174 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89180186 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89180199 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89180211 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89180224 TTCCGATTAAAT
1 TTCCGCTTAAAT
89180236 TT
1 TT
89180238 GCCCTTATTA
Statistics
Matches: 88, Mismatches: 34, Indels: 10
0.67 0.26 0.08
Matches are distributed among these distances:
12 45 0.51
13 43 0.49
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (12 bp):
TTCCGCTTAAAT
Found at i:89182110 original size:25 final size:25
Alignment explanation
Indices: 89182081--89182244 Score: 256
Period size: 25 Copynumber: 6.6 Consensus size: 25
89182071 TTGATAAATC
*
89182081 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89182106 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89182131 GCTCTTAATAATTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89182156 TCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89182181 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89182206 GCTCTTAATATTTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89182231 GCCCTTATTATTTC
1 GCTCTTAATATTTC
89182245 TGAATAAGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 127 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89182230 original size:12 final size:12
Alignment explanation
Indices: 89182092--89182230 Score: 71
Period size: 12 Copynumber: 11.2 Consensus size: 12
89182082 CTCTTAATAA
*
89182092 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89182104 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
* *
89182117 TTCCGGTAAAAT
1 TTCCGCTTAAAT
* * *
89182129 TTGCTCTTAATAA
1 TTCCGCTTAA-AT
*
89182142 TTCCGATTAAAT
1 TTCCGCTTAAAT
* *
89182154 TTTCTCTTAATAT
1 TTCCGCTTAA-AT
*
89182167 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89182179 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89182192 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89182204 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89182217 TTCCGATTAAAT
1 TTCCGCTTAAAT
89182229 TT
1 TT
89182231 GCCCTTATTA
Statistics
Matches: 88, Mismatches: 34, Indels: 10
0.67 0.26 0.08
Matches are distributed among these distances:
12 45 0.51
13 43 0.49
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (12 bp):
TTCCGCTTAAAT
Found at i:89184102 original size:25 final size:25
Alignment explanation
Indices: 89184073--89184236 Score: 256
Period size: 25 Copynumber: 6.6 Consensus size: 25
89184063 TTGATAAATC
*
89184073 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89184098 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89184123 GCTCTTAATAATTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89184148 TCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89184173 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89184198 GCTCTTAATATTTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89184223 GCCCTTATTATTTC
1 GCTCTTAATATTTC
89184237 TGAATAAGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 127 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89184222 original size:12 final size:12
Alignment explanation
Indices: 89184084--89184222 Score: 71
Period size: 12 Copynumber: 11.2 Consensus size: 12
89184074 CTCTTAATAA
*
89184084 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89184096 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
* *
89184109 TTCCGGTAAAAT
1 TTCCGCTTAAAT
* * *
89184121 TTGCTCTTAATAA
1 TTCCGCTTAA-AT
*
89184134 TTCCGATTAAAT
1 TTCCGCTTAAAT
* *
89184146 TTTCTCTTAATAT
1 TTCCGCTTAA-AT
*
89184159 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89184171 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89184184 TTCCGGTTAAAT
1 TTCCGCTTAAAT
* *
89184196 TTGCTCTTAATAT
1 TTCCGCTTAA-AT
*
89184209 TTCCGATTAAAT
1 TTCCGCTTAAAT
89184221 TT
1 TT
89184223 GCCCTTATTA
Statistics
Matches: 88, Mismatches: 34, Indels: 10
0.67 0.26 0.08
Matches are distributed among these distances:
12 45 0.51
13 43 0.49
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (12 bp):
TTCCGCTTAAAT
Found at i:89186093 original size:25 final size:25
Alignment explanation
Indices: 89186064--89186252 Score: 270
Period size: 25 Copynumber: 7.6 Consensus size: 25
89186054 TTGATAAATC
*
89186064 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89186089 GCTCTTAATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* *
89186114 GCTCTTAATAATTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* * *
89186139 TCTCTTTATATTTCCGGTAAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89186164 GCTCTTAATAATTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
89186189 GCTCTTAATATTTCCGGTTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
*
89186214 GCTCTTAATATTTCCGATTAAATTT
1 GCTCTTAATATTTCCGGTTAAATTT
* * *
89186239 TCCCTTATTATTTC
1 GCTCTTAATATTTC
89186253 TGAATAAGTT
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 145 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
GCTCTTAATATTTCCGGTTAAATTT
Found at i:89187151 original size:45 final size:43
Alignment explanation
Indices: 89187082--89187212 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 43
89187072 ATATCGTACA
* * *
89187082 ATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAT
1 ATACTATTCGGGCC-TTGAACCTAGCAGGCTATAATGCC-GTGAG
* * *
89187127 ATACTATTCGGGCCTATGACCCTAGCAGTCTATAATGCCGATTAG
1 ATACTATTCGGGCCT-TGAACCTAGCAGGCTATAATGCCG-TGAG
*
89187172 ATACTATTCGGGCCTTCGAACCTAGCAGGGTTATAATGCCG
1 ATACTATTCGGGCCTT-GAACCTAGCA-GGCTATAATGCCG
89187213 GTGAAATGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
44 3 0.04
45 60 0.81
46 11 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
ATACTATTCGGGCCTTGAACCTAGCAGGCTATAATGCCGTGAG
Found at i:89192060 original size:40 final size:39
Alignment explanation
Indices: 89191976--89192199 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
89191966 TTGAATGATG
* * * *
89191976 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
89192016 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
89192056 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
89192095 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
89192134 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
89192175 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
89192200 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 72 0.44
40 81 0.50
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89192168 original size:79 final size:79
Alignment explanation
Indices: 89191976--89192199 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
89191966 TTGAATGATG
* * * * *
89191976 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
*
89192040 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* *
89192056 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
*
89192120 TGCGAGTTACTAAA
66 TGCGAGATACTAAA
* *
89192134 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGT-CCGAAGGCATT
89192198 TG
64 TG
89192200 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
78 36 0.28
79 59 0.46
80 32 0.25
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:89192221 original size:79 final size:79
Alignment explanation
Indices: 89191976--89192232 Score: 238
Period size: 79 Copynumber: 3.3 Consensus size: 79
89191966 TTGAATGATG
* * * * * * *
89191976 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
** *
89192040 TGTGCGAGAT-ACTAAT
64 TGAACGAG-TGACTAAA
* *
89192056 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
** *
89192120 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
89192134 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGT-CCGAAGGCATT
*
89192198 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
89192214 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
89192233 TACGTGATTT
Statistics
Matches: 153, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 35 0.23
79 74 0.48
80 43 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:89199469 original size:50 final size:49
Alignment explanation
Indices: 89199381--89199571 Score: 262
Period size: 50 Copynumber: 3.9 Consensus size: 49
89199371 AATTTAAAGC
*
89199381 TTGAT-AAA-TTGCTCTTAATAA-TCCAGTTAAATTTGCTCTTAATATT
1 TTGATAAAATTTGCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATT
*
89199427 TCTGATAAAATTTGCTCTTAATAATTCTGGTTAAATTTGCTCTTAATATT
1 T-TGATAAAATTTGCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATT
*
89199477 TTTAGTAAAATTTGCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATT
1 TTGA-TAAAATTTGCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATT
* * * * *
89199527 TTCGGTTAAATTTGCTCTTAATATTTCTGGTTAAATTTGCCCTTA
1 TT-GATAAAATTTGCTCTTAATAATTCCGGTTAAATTTGCTCTTA
89199572 TTGTTTCCGA
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
46 1 0.01
47 4 0.03
48 3 0.02
49 15 0.12
50 106 0.82
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (49 bp):
TTGATAAAATTTGCTCTTAATAATTCCGGTTAAATTTGCTCTTAATATT
Found at i:89199578 original size:25 final size:25
Alignment explanation
Indices: 89199385--89199571 Score: 236
Period size: 25 Copynumber: 7.6 Consensus size: 25
89199375 TAAAGCTTGA
* **
89199385 TAAA-TTGCTCTTAATA-ATCCAGT
1 TAAATTTGCTCTTAATATTTCTGGT
*
89199408 TAAATTTGCTCTTAATATTTCTGAT
1 TAAATTTGCTCTTAATATTTCTGGT
* *
89199433 AAAATTTGCTCTTAATAATTCTGGT
1 TAAATTTGCTCTTAATATTTCTGGT
* *
89199458 TAAATTTGCTCTTAATATTTTTAGT
1 TAAATTTGCTCTTAATATTTCTGGT
* * *
89199483 AAAATTTGCTCTTAATAATTCCGGT
1 TAAATTTGCTCTTAATATTTCTGGT
89199508 TAAATTTGCTCTTAATATTT-TCGGT
1 TAAATTTGCTCTTAATATTTCT-GGT
89199533 TAAATTTGCTCTTAATATTTCTGGT
1 TAAATTTGCTCTTAATATTTCTGGT
*
89199558 TAAATTTGCCCTTA
1 TAAATTTGCTCTTA
89199572 TTGTTTCCGA
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.03
24 12 0.09
25 123 0.88
26 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (25 bp):
TAAATTTGCTCTTAATATTTCTGGT
Found at i:89200472 original size:45 final size:45
Alignment explanation
Indices: 89200408--89200627 Score: 349
Period size: 45 Copynumber: 5.0 Consensus size: 45
89200398 TATCGTGCAG
89200408 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
*
89200453 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
*
89200498 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
*
89200543 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
89200588 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCAGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
89200628 ATAAATTCGG
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 10 0.06
43 17 0.10
44 5 0.03
45 133 0.80
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:89201973 original size:16 final size:15
Alignment explanation
Indices: 89201949--89201978 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
89201939 AACTATTTTA
89201949 TTACAAATTTCACTC
1 TTACAAATTTCACTC
89201964 TTACATAATTTCACT
1 TTACA-AATTTCACT
89201979 TACTTCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:89205645 original size:27 final size:27
Alignment explanation
Indices: 89205615--89205792 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89205605 ATATTGAGTC
* * * *
89205615 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
89205642 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89205669 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
89205697 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
89205724 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
89205751 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89205778 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89205793 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:89205754 original size:82 final size:81
Alignment explanation
Indices: 89205636--89205791 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89205626 TGCTATATAA
* *
89205636 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89205701 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89205718 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89205782 CACTTAGTGC
65 CACTTAGTGC
89205792 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89211658 original size:4 final size:4
Alignment explanation
Indices: 89211637--89211669 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
89211627 TTATGGTTTT
*
89211637 TTAA TT-A TTAA GTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
89211670 GAAGTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:89211818 original size:17 final size:17
Alignment explanation
Indices: 89211796--89211828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
89211786 TAGAATTGGG
89211796 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
*
89211813 TTGAGAAATTTATTTA
1 TTGAGAAAATTATTTA
89211829 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:89215100 original size:20 final size:22
Alignment explanation
Indices: 89215077--89215118 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
89215067 TAATAACTTT
89215077 AATAATTTT-TAAT-TTTAAAA
1 AATAATTTTATAATATTTAAAA
89215097 AATAATTTTATAATATTTAAAA
1 AATAATTTTATAATATTTAAAA
89215119 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTATAATATTTAAAA
Found at i:89215436 original size:30 final size:29
Alignment explanation
Indices: 89215396--89215460 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
89215386 CAATTATAAC
*
89215396 TATATATATAAATATATATTACATTTTGGG
1 TATATTTATAAATATATATTACA-TTTGGG
*
89215426 TATATTTATAAATATTTATTACATTTGGG
1 TATATTTATAAATATATATTACATTTGGG
*
89215455 TTTATT
1 TATATT
89215461 ATATTTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.52
Consensus pattern (29 bp):
TATATTTATAAATATATATTACATTTGGG
Found at i:89219137 original size:46 final size:45
Alignment explanation
Indices: 89219084--89219246 Score: 166
Period size: 46 Copynumber: 3.5 Consensus size: 45
89219074 TCACTAGGAT
* *
89219084 AGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGC-AAAGTCCGAGCTCGTTG
*** * * * *
89219130 AGTTGAGTCCGAGTTCGAGAGATGTA-GCTAGGCATCCGAGCTCATTG
1 AGTTGAGTCCGAGTTC-ACTTATGGATGCAAAG--TCCGAGCTCGTTG
* **
89219177 AGTTGAGTCTGAGTTCACTTATGGATGCAAACACTCGAGCTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCAAAGTC-CGAGCTCGTTG
89219223 AGTTGAGTCCGAGTTCACTTATGG
1 AGTTGAGTCCGAGTTCACTTATGG
89219247 GCGTGTTACA
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 3 0.03
46 56 0.60
47 34 0.37
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (45 bp):
AGTTGAGTCCGAGTTCACTTATGGATGCAAAGTCCGAGCTCGTTG
Found at i:89222259 original size:30 final size:30
Alignment explanation
Indices: 89222190--89222277 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
89222180 CATAGTATCG
* * * * *
89222190 TATCTTGGGTTTCTTTATCCTGAATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
89222220 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
89222250 TATCTTGGATTTCTTTATT-TGGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
89222278 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.80
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:89222276 original size:14 final size:15
Alignment explanation
Indices: 89222199--89222278 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
89222189 GTATCTTGGG
* *
89222199 TTTCTTTATCCTGAA
1 TTTCTTTATTCTGGA
*
89222214 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
89222229 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
89222244 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
89222259 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
89222273 TTTCTT
1 TTTCTT
89222279 GTTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 11 0.20
15 42 0.78
16 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:89226402 original size:46 final size:46
Alignment explanation
Indices: 89226268--89226487 Score: 148
Period size: 46 Copynumber: 4.7 Consensus size: 46
89226258 GCATATTTGT
* *
89226268 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCGTGT--A-
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAG-CAC-TCGTCTCGAG
* * * *
89226314 GCTGATTCATGTCCCAGACATGTCTTACACTGGCTTA-T-GTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC--ACTCGTCTCGAG
* * * *
89226360 GCCGAAGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCGAG
* * * * * * *
89226406 GTCGATGCCATGTCCCAAAAATGGTCTTACACTTGCTCTCATAAT-GCG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGT-CTCGAG
*
89226454 GCCGATGCATGTCCCAAACATTTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC
89226488 TCACAATAAC
Statistics
Matches: 139, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.02
44 13 0.09
45 17 0.12
46 58 0.42
47 25 0.18
48 22 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCGAG
Found at i:89228649 original size:21 final size:20
Alignment explanation
Indices: 89228624--89228708 Score: 55
Period size: 22 Copynumber: 4.0 Consensus size: 20
89228614 AATAATACAT
*
89228624 TAAATATTTACAATATTAAATA
1 TAAATATTTA-AAT-TAAAATA
*
89228646 -AAATGTTTAAATTAAAATA
1 TAAATATTTAAATTAAAATA
* * *
89228665 TAAATAAAATAAAATTTAAATACA
1 TAAAT--ATTTAAA-TTAAA-ATA
89228689 TAAATATATTAAATTAAAAT
1 TAAATAT-TTAAATTAAAAT
89228709 TATTAAATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
19 6 0.12
20 7 0.15
21 9 0.19
22 10 0.21
23 9 0.19
24 7 0.15
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (20 bp):
TAAATATTTAAATTAAAATA
Found at i:89228677 original size:16 final size:16
Alignment explanation
Indices: 89228653--89228708 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
89228643 ATAAAATGTT
*
89228653 TAAATTAAAATATAAA
1 TAAAATAAAATATAAA
*
89228669 TAAAATAAAATTTAAA
1 TAAAATAAAATATAAA
*
89228685 T-ACATAAATATATTAAA
1 TAAAATAAA-ATA-TAAA
89228702 TTAAAAT
1 -TAAAAT
89228709 TATTAAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.19
16 17 0.55
17 4 0.13
18 1 0.03
19 3 0.10
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATAAAATATAAA
Found at i:89228702 original size:28 final size:28
Alignment explanation
Indices: 89228636--89228709 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 28
89228626 AATATTTACA
89228636 ATATTAAATAAAATGTTTAAATTAAAATAT
1 ATATTAAATAAAA--TTTAAATTAAAATAT
* *
89228666 AAATAAAATAAAATTTAAA-TACATAA-AT
1 ATATTAAATAAAATTTAAATTA-A-AATAT
89228694 ATATTAAATTAAAATT
1 ATATTAAA-TAAAATT
89228710 ATTAAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.05
28 15 0.41
29 9 0.24
30 11 0.30
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
ATATTAAATAAAATTTAAATTAAAATAT
Found at i:89230300 original size:21 final size:21
Alignment explanation
Indices: 89230260--89230300 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89230250 TTTTTATTTG
*
89230260 TTAATGTGATATCTTACATAA
1 TTAATGTGATATCATACATAA
89230281 TTAATGT-ATATCATATCATA
1 TTAATGTGATATCATA-CATA
89230301 TTTTCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (21 bp):
TTAATGTGATATCATACATAA
Found at i:89234268 original size:27 final size:27
Alignment explanation
Indices: 89234238--89234293 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
89234228 AATCATACAC
*
89234238 CACATAGGGGCAAAACAGTCATTTTAT
1 CACATAGGGGCAAAACAATCATTTTAT
* *
89234265 CACATAGGGGTATAACAATCATTTTAT
1 CACATAGGGGCAAAACAATCATTTTAT
89234292 CA
1 CA
89234294 ATTAGAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (27 bp):
CACATAGGGGCAAAACAATCATTTTAT
Found at i:89234439 original size:17 final size:18
Alignment explanation
Indices: 89234408--89234441 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
89234398 CATATTGCAG
89234408 GCCCGTGTGGGCCCACAT
1 GCCCGTGTGGGCCCACAT
89234426 GCCCGTGT-GGCCCACA
1 GCCCGTGTGGGCCCACA
89234442 CGGCCAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.41, G:0.32, T:0.15
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAT
Found at i:89240556 original size:42 final size:42
Alignment explanation
Indices: 89240510--89240602 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
89240500 CTTACATGAT
* *
89240510 TCTCATATCGATGCCATGTCCCAAACATGGTCTTACACAAAA
1 TCTCATAACGATGCCATATCCCAAACATGGTCTTACACAAAA
* * * *
89240552 TCTCATAACGATGTCATATCCCAGATATGGTCTTACACGTAAA
1 TCTCATAACGATGCCATATCCCAAACATGGTCTTACAC-AAAA
89240595 -CTCATAAC
1 TCTCATAAC
89240603 CCTAATGTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (42 bp):
TCTCATAACGATGCCATATCCCAAACATGGTCTTACACAAAA
Found at i:89243690 original size:16 final size:16
Alignment explanation
Indices: 89243666--89243701 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
89243656 AGACACGAGA
89243666 GCTACGAGATAAACTG
1 GCTACGAGATAAACTG
*
89243682 GCTATGAGATAAACTG
1 GCTACGAGATAAACTG
89243698 GCTA
1 GCTA
89243702 GGTCACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (16 bp):
GCTACGAGATAAACTG
Found at i:89247258 original size:57 final size:57
Alignment explanation
Indices: 89247170--89247278 Score: 191
Period size: 57 Copynumber: 1.9 Consensus size: 57
89247160 AAGCTAAAAC
* *
89247170 TCACTGTTACTAAACTTATCATACAACTATTTATCTCTCAAATTTTGTAAAATGGAA
1 TCACTGTTACTAAACTTAGCATACAACTATTTATCTCTCAAAGTTTGTAAAATGGAA
*
89247227 TCACTTTTACTAAACTTAGCATACAACTATTTATCTCTCAAAGTTTGTAAAA
1 TCACTGTTACTAAACTTAGCATACAACTATTTATCTCTCAAAGTTTGTAAAA
89247279 CGATTATCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (57 bp):
TCACTGTTACTAAACTTAGCATACAACTATTTATCTCTCAAAGTTTGTAAAATGGAA
Found at i:89250471 original size:42 final size:42
Alignment explanation
Indices: 89250425--89250578 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
89250415 AATCATACCA
*
89250425 ATGCCATATCCTAGATATGGTCTTACATAAGATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACATAAGATCTCATAACG
* * ** *
89250467 ATGCCAATAGCCCAAATATGGTCTTAC--CCGATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATAAGA-TCTCATAACG
* * * * *
89250509 ATGCCATGTCCCAGATATGGTTTTACACAAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACATAAGATCTCATAACG
* *
89250551 ATGCCATATCCCAGATTTGGTATTACAT
1 ATGCCATATCCCAGATATGGTCTTACAT
89250579 GTAAATTCAT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 19 0.21
42 51 0.57
43 19 0.21
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATAAGATCTCATAACG
Found at i:89250589 original size:84 final size:84
Alignment explanation
Indices: 89250425--89250577 Score: 191
Period size: 84 Copynumber: 1.8 Consensus size: 84
89250415 AATCATACCA
* * * *
89250425 ATGCCATATCCTAGATATGGTCTTACATAAGATCTCATAACGATGCCAATAGCCCAAATATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATAACGATGCCAATAGCCCAAATATGGTA
* *
89250490 TTACCCGATTCTCATATCG
66 TTACACGAATCTCATATCG
* * * * * *
89250509 ATGCCATGTCCCAGATATGGTTTTACACAAAATCTCATAATGATGCC-ATATCCCAGATTTGGTA
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATAACGATGCCAATAGCCCAAATATGGTA
89250573 TTACA
66 TTACA
89250578 TGTAAATTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
83 17 0.29
84 41 0.71
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATAACGATGCCAATAGCCCAAATATGGTA
TTACACGAATCTCATATCG
Found at i:89252412 original size:35 final size:35
Alignment explanation
Indices: 89252372--89252449 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
89252362 TCGTGAAAAA
*
89252372 AAAGAAAAGGAACAAAAAAAGAGCATATGTACTTG
1 AAAGAAAAAGAACAAAAAAAGAGCATATGTACTTG
89252407 AAAGAAAAAGAACAAAAAAAGAGCATATGTACTTG
1 AAAGAAAAAGAACAAAAAAAGAGCATATGTACTTG
89252442 AAAGAAAA
1 AAAGAAAA
89252450 TAGATATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.62, C:0.08, G:0.18, T:0.13
Consensus pattern (35 bp):
AAAGAAAAAGAACAAAAAAAGAGCATATGTACTTG
Found at i:89255737 original size:40 final size:40
Alignment explanation
Indices: 89255670--89255916 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 40
89255660 CCTTCGGAGT
** * *
89255670 TTAG-CCGGATATAGCCACTACCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * *
89255709 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
89255749 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* * * *
89255788 TTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
89255828 TTAGCCCGGATATAGTAGCTAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* ** *
89255868 TTAGCCC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCT-TCGGGAC
89255908 TTAGCCCGG
1 TTAGCCCGG
89255917 TTATCATCCG
Statistics
Matches: 181, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 45 0.25
40 135 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:89255791 original size:79 final size:80
Alignment explanation
Indices: 89255693--89255875 Score: 269
Period size: 79 Copynumber: 2.3 Consensus size: 80
89255683 GCCACTACCT
* * * *
89255693 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGAGACTTAGCCCGG
*
89255758 -TATAATAACTCGCA
66 ATATAATAACTAGCA
* *
89255772 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGAGACTTAGCCCGG
* *
89255837 ATATAGTAGCTAGCA
66 ATATAATAACTAGCA
*
89255852 CGAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
89255876 AAATTAGCCA
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 59 0.63
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGAGACTTAGCCCGG
ATATAATAACTAGCA
Done.