Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 63 of 91
Found at i:22726098 original size:83 final size:83
Alignment explanation
Indices: 22725977--22726297 Score: 507
Period size: 83 Copynumber: 3.9 Consensus size: 83
22725967 CGCACATAGT
* * * *
22725977 TGGGTGATTATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATTAACTCATGTG
1 TGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGTG
*
22726042 TACTCCTCCACACATGGT
66 TACTCCTCCACACATGGC
* *
22726060 TGGGTCATCATCAGCTCATGTGCACTCCCTACTTGCACATCGCTGGGTCATCATCAGCTCATGTG
1 TGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGTG
* * *
22726125 TACTCTTTCGCACATGGC
66 TACTCCTCCACACATGGC
*
22726143 TGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGTTGGGTCATCATCAGCTCATGTG
1 TGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGTG
22726208 TACTCCTCCACACATGGC
66 TACTCCTCCACACATGGC
* * *
22726226 TGGGTCATCATCAGCACATGTGCACTCCTTACTCACACATAGCTGGGTCATCATCAGCTCATGTG
1 TGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGTG
*
22726291 CACTCCT
66 TACTCCT
22726298 GCACTGCACA
Statistics
Matches: 217, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 217 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (83 bp):
TGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGTG
TACTCCTCCACACATGGC
Found at i:22726297 original size:43 final size:43
Alignment explanation
Indices: 22725944--22726296 Score: 420
Period size: 43 Copynumber: 8.4 Consensus size: 43
22725934 TAACTCTCTC
* * * * *
22725944 TCAGCTTATGTGCACTCCC-ACACCGCACATAGTTGGGTGATTA
1 TCAGCTCATGTGCACTCCCTAC-TCGCACATAGCTGGGTCATCA
22725987 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
* * * * * *
22726030 TTAACTCATGTGTACT-CCT-C-CACACATGGTTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
* *
22726070 TCAGCTCATGTGCACTCCCTACTTGCACATCGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
* * *
22726113 TCAGCTCATGTGTACT--CT-TTCGCACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
*
22726153 TCAGCTCATGTGCACTCCCTACTCGCACATAGTTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
* * *
22726196 TCAGCTCATGTGTACT-CCT-C-CACACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
* * *
22726236 TCAGCACATGTGCACTCCTTACTCACACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
22726279 TCAGCTCATGTGCACTCC
1 TCAGCTCATGTGCACTCC
22726297 TGCACTGCAC
Statistics
Matches: 265, Mismatches: 35, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
40 95 0.36
41 9 0.03
42 10 0.04
43 149 0.56
44 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
Found at i:22731762 original size:19 final size:17
Alignment explanation
Indices: 22731738--22731781 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
22731728 CCTTTTGTAT
22731738 TGTGAATACAATCTAACAA
1 TGTGAATA-AAT-TAACAA
**
22731757 TGTGAATATGTTAACAA
1 TGTGAATAAATTAACAA
22731774 TGTGAATA
1 TGTGAATA
22731782 TGTGTATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 14 0.61
18 1 0.04
19 8 0.35
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (17 bp):
TGTGAATAAATTAACAA
Found at i:22731795 original size:19 final size:17
Alignment explanation
Indices: 22731751--22731784 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22731741 GAATACAATC
22731751 TAACAATGTGAATATGT
1 TAACAATGTGAATATGT
22731768 TAACAATGTGAATATGT
1 TAACAATGTGAATATGT
22731785 GTATGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
TAACAATGTGAATATGT
Found at i:22732476 original size:23 final size:23
Alignment explanation
Indices: 22732445--22732489 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22732435 TCAAGAAGTT
*
22732445 TGGAGAAGAAAG-GAAAGAAAACA
1 TGGAAAAGAAAGTG-AAGAAAACA
22732468 TGGAAAAGAAAGTGAAGAAAAC
1 TGGAAAAGAAAGTGAAGAAAAC
22732490 TTGATTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.60, C:0.04, G:0.29, T:0.07
Consensus pattern (23 bp):
TGGAAAAGAAAGTGAAGAAAACA
Found at i:22734159 original size:29 final size:29
Alignment explanation
Indices: 22734125--22734181 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
22734115 TTTTCCATTG
* *
22734125 AACAAGGTTTTCTTGATTCCATTTTTTTT
1 AACAAGGGTTTCTTGATTCCATTCTTTTT
22734154 AACAAGGGTTTCTTGATTCCATTCTTTT
1 AACAAGGGTTTCTTGATTCCATTCTTTT
22734182 GAGACATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (29 bp):
AACAAGGGTTTCTTGATTCCATTCTTTTT
Found at i:22734431 original size:36 final size:36
Alignment explanation
Indices: 22734353--22734443 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 36
22734343 TTGGGCGTAG
** * *
22734353 TACGTGATTTGTTTTTCATCAGTTGCTTGGTCGTCG
1 TACGTGATTTGTTTTTTGTCAGTTGCTTGGTCGCCA
*
22734389 TTCGTGATTTGTTTTTTGTCAGTTGCTTGAG-CGCCA
1 TACGTGATTTGTTTTTTGTCAGTTGCTTG-GTCGCCA
* *
22734425 TACGTGATTTATTCTTTGT
1 TACGTGATTTGTTTTTTGT
22734444 TGACTGTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 45 0.98
37 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.49
Consensus pattern (36 bp):
TACGTGATTTGTTTTTTGTCAGTTGCTTGGTCGCCA
Found at i:22734488 original size:72 final size:71
Alignment explanation
Indices: 22734419--22734556 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 71
22734409 AGTTGCTTGA
* * * *
22734419 GCGCCATACGTGATTTATTCTTTGTTGACTGTTTCGGCTCTAT-ATGTGATTTGTTCTTCATTGG
1 GCGCCACACGTGATTTATTCTTTATCGACTGCTTCGG-TCT-TCATGTGATTTGTTCTTCATTGG
22734483 CTGCTTTG
64 CTGCTTTG
* * * * *
22734491 GTGCCGCACGTGATTTGTTCTTTATCGACTGCTTCGGTGTTGCATGTGATTTGTTTTTCATTGGC
1 GCGCCACACGTGATTTATTCTTTATCGACTGCTTCGGTCTT-CATGTGATTTGTTCTTCATTGGC
22734556 T
65 T
22734557 ACTTCAATGC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 1 0.02
71 2 0.04
72 52 0.95
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (71 bp):
GCGCCACACGTGATTTATTCTTTATCGACTGCTTCGGTCTTCATGTGATTTGTTCTTCATTGGCT
GCTTTG
Found at i:22734504 original size:36 final size:36
Alignment explanation
Indices: 22734464--22734561 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 36
22734454 GGCTCTATAT
*
22734464 GTGATTTGTTCTTCATTGGCTGCTTTGGTGCCGCAC
1 GTGATTTGTTCTTCATTGGCTGCTTCGGTGCCGCAC
* * * ** *
22734500 GTGATTTGTTCTTTATCGACTGCTTCGGTGTTGCAT
1 GTGATTTGTTCTTCATTGGCTGCTTCGGTGCCGCAC
* *
22734536 GTGATTTGTTTTTCATTGGCTACTTC
1 GTGATTTGTTCTTCATTGGCTGCTTC
22734562 AATGCCATAC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.47
Consensus pattern (36 bp):
GTGATTTGTTCTTCATTGGCTGCTTCGGTGCCGCAC
Found at i:22734715 original size:72 final size:72
Alignment explanation
Indices: 22734575--22734722 Score: 161
Period size: 72 Copynumber: 2.1 Consensus size: 72
22734565 GCCATACTTG
* * * * * * * * *
22734575 TTCTCCATCGACTACTTCGACGTTGCACATGATTTGTTTTTCGTCGGCTGCTTGGGCCCCATATG
1 TTCTCCATCGACTACTTCGACATTGCACACGATTTGTTCTTCGTCGGCTACTTCGACACCACACG
22734640 TGATTTA
66 TGATTTA
* * * * *
22734647 TTCTCTATCGACTACTTCGGCATTGTACACGATTTGTTCTTCGTCGGTTACTTCTACACCACACG
1 TTCTCCATCGACTACTTCGACATTGCACACGATTTGTTCTTCGTCGGCTACTTCGACACCACACG
*
22734712 TGATTTT
66 TGATTTA
22734719 TTCT
1 TTCT
22734723 TCATTAGCTA
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.41
Consensus pattern (72 bp):
TTCTCCATCGACTACTTCGACATTGCACACGATTTGTTCTTCGTCGGCTACTTCGACACCACACG
TGATTTA
Found at i:22735432 original size:20 final size:20
Alignment explanation
Indices: 22735409--22735447 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22735399 TCCAAACAAT
*
22735409 TAAAATTAAAACTAATATAC
1 TAAAAATAAAACTAATATAC
22735429 TAAAAATAAAACTAATATA
1 TAAAAATAAAACTAATATA
22735448 AAATTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAATAAAACTAATATAC
Found at i:22736702 original size:18 final size:18
Alignment explanation
Indices: 22736679--22736713 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22736669 TTGACTCACC
* *
22736679 TAATTAACTAACATAAAG
1 TAATTAAATAAAATAAAG
22736697 TAATTAAATAAAATAAA
1 TAATTAAATAAAATAAA
22736714 ACCTAACTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (18 bp):
TAATTAAATAAAATAAAG
Found at i:22738483 original size:30 final size:30
Alignment explanation
Indices: 22738441--22738497 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22738431 TTTTCCATAA
*
22738441 AACAAGGATTTCCTGATTCTATTTTTTCTG
1 AACAAGGATTTCCTAATTCTATTTTTTCTG
*
22738471 AACAA-GATTTTCCTAATTTTATTTTTT
1 AACAAGGA-TTTCCTAATTCTATTTTTT
22738498 TGAGACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (30 bp):
AACAAGGATTTCCTAATTCTATTTTTTCTG
Found at i:22750128 original size:2 final size:2
Alignment explanation
Indices: 22750121--22750235 Score: 173
Period size: 2 Copynumber: 58.0 Consensus size: 2
22750111 ACACATGAGC
22750121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
22750163 AT AT AT AT AT AT AT AT AT ACT AT NAC A- AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT
22750206 AT AT AT AT AT -T A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22750236 GAATATTCAA
Statistics
Matches: 105, Mismatches: 3, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
1 3 0.03
2 99 0.94
3 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22751010 original size:12 final size:12
Alignment explanation
Indices: 22750971--22751002 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22750961 AACTTGGGGG
22750971 TCTTTCTCTTTT
1 TCTTTCTCTTTT
*
22750983 TCTTTTTCTTTT
1 TCTTTCTCTTTT
22750995 TCTTTCTC
1 TCTTTCTC
22751003 ATTCTCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TCTTTCTCTTTT
Found at i:22760299 original size:32 final size:34
Alignment explanation
Indices: 22760263--22760326 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
22760253 TCGGTTGAGA
*
22760263 GTGGGAGAAGAA-AAATAAAAGAA-AGAAAAATC
1 GTGGGAGAAGAAGAAAGAAAAGAAGAGAAAAATC
* *
22760295 GTGGGAGAGGAAGAAAGAAATGAAGAGAAAAA
1 GTGGGAGAAGAAGAAAGAAAAGAAGAGAAAAA
22760327 GGGAGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 11 0.41
33 9 0.33
34 7 0.26
ACGTcount: A:0.59, C:0.02, G:0.31, T:0.08
Consensus pattern (34 bp):
GTGGGAGAAGAAGAAAGAAAAGAAGAGAAAAATC
Found at i:22760655 original size:34 final size:34
Alignment explanation
Indices: 22760610--22760703 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 34
22760600 TTGGCTGCTG
*
22760610 AAAATTTGAGCTGTTTGCTGCCAATTTGTGCAGA
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
** * *
22760644 AAAATTGGAGCTGTTTGCTGGTAGTTTGTGCAGG
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
22760678 AAAATTGGACAGCT-TTGTGCTGCCAA
1 AAAATTGG--AGCTGTT-TGCTGCCAA
22760704 AATTGAGAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 37 0.76
35 2 0.04
36 10 0.20
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (34 bp):
AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGA
Found at i:22760809 original size:115 final size:115
Alignment explanation
Indices: 22760607--22760851 Score: 418
Period size: 115 Copynumber: 2.1 Consensus size: 115
22760597 ACTTTGGCTG
* *
22760607 CTGAAAATTTGAGCTGTTTGCTGCCAATTTGTGCAGAAAAATTGGAGCTGTTTGCTGGTAGTTTG
1 CTGAAAATTTGAGCTATTTGCTGCCAATTTGTGCAAAAAAATTGGAGCTGTTTGCTGGTAGTTTG
*
22760672 TGCAGGAAAATTGGACAGCTTTGTGCTGCCAAAATTGAGAAGTTTTGCTA
66 TGCAGGAAAATTGGACAGCTTTGTGCTACCAAAATTGAGAAGTTTTGCTA
*
22760722 CTGAAAATTTGAGCTATTTGCTGCCAATTTGTGCAAAAAAATTGGAGCTGTTTGTTGGTAGTTTG
1 CTGAAAATTTGAGCTATTTGCTGCCAATTTGTGCAAAAAAATTGGAGCTGTTTGCTGGTAGTTTG
* * * *
22760787 TGTAGGAAAATTGGATAGCTTTGTGCTACCAAAATTGAGAAGTTTTGTTG
66 TGCAGGAAAATTGGACAGCTTTGTGCTACCAAAATTGAGAAGTTTTGCTA
22760837 CTGAAAATTTGAGCT
1 CTGAAAATTTGAGCT
22760852 GGAAATCTGC
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 122 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (115 bp):
CTGAAAATTTGAGCTATTTGCTGCCAATTTGTGCAAAAAAATTGGAGCTGTTTGCTGGTAGTTTG
TGCAGGAAAATTGGACAGCTTTGTGCTACCAAAATTGAGAAGTTTTGCTA
Found at i:22760995 original size:12 final size:11
Alignment explanation
Indices: 22760976--22761005 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
22760966 TGACGGGCTG
22760976 AAAAGAAAAAA
1 AAAAGAAAAAA
22760987 AAGAAGAAAAAA
1 AA-AAGAAAAAA
22760999 AAAAGAA
1 AAAAGAA
22761006 GAAACGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:22760995 original size:17 final size:17
Alignment explanation
Indices: 22760975--22761008 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22760965 GTGACGGGCT
22760975 GAAAAGAAAAAA-AAGAA
1 GAAAA-AAAAAAGAAGAA
22760992 GAAAAAAAAAAGAAGAA
1 GAAAAAAAAAAGAAGAA
22761009 ACGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAAAGAAGAA
Found at i:22761000 original size:14 final size:14
Alignment explanation
Indices: 22760981--22761009 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22760971 GGCTGAAAAG
22760981 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
22760995 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
22761009 A
1 A
22761010 CGTGGAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:22761033 original size:10 final size:10
Alignment explanation
Indices: 22760976--22761046 Score: 51
Period size: 9 Copynumber: 7.3 Consensus size: 10
22760966 TGACGGGCTG
22760976 AAAAGAAA-A
1 AAAAGAAAGA
22760985 AAAAG-AAGA
1 AAAAGAAAGA
22760994 AAAA-AAA-A
1 AAAAGAAAGA
* *
22761002 AGAAGAAACGT
1 AAAAGAAA-GA
** *
22761013 GGAAGAGAGA
1 AAAAGAAAGA
22761023 AAAAGAAAGA
1 AAAAGAAAGA
22761033 AAAAGAAAAGA
1 AAAAG-AAAGA
22761044 AAA
1 AAA
22761047 TAAATGGGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 6 0.12
9 15 0.31
10 13 0.27
11 14 0.29
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:22764983 original size:72 final size:72
Alignment explanation
Indices: 22764873--22765007 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 72
22764863 TTAAAGTCTA
* * * *
22764873 GAGGTGAAGTCTCGATATCTTAAAGCTAGGTCTTGATACAT-GGACACTTGCCCTCTGGAATTTT
1 GAGGTGAAGTCTCGATATCTTAAAGCCAAGTCTCGATACATCAG-CACTTGCCCTCTGGAATTTT
22764937 GGATTTTT
65 GGATTTTT
* * * *
22764945 GAGGTGATGTCTCGATA-CTTCAAGTCCAAGTCTCGATACATCAGCACTTGTCTTCTGGAATTT
1 GAGGTGAAGTCTCGATATCTTAAAG-CCAAGTCTCGATACATCAGCACTTGCCCTCTGGAATTT
22765008 AAGGCTCCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 6 0.11
72 46 0.87
73 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (72 bp):
GAGGTGAAGTCTCGATATCTTAAAGCCAAGTCTCGATACATCAGCACTTGCCCTCTGGAATTTTG
GATTTTT
Found at i:22769599 original size:139 final size:137
Alignment explanation
Indices: 22769429--22769705 Score: 488
Period size: 139 Copynumber: 2.0 Consensus size: 137
22769419 TGTTAAAAGT
22769429 TTAAATTAAAAAAATTATCTTTTCAATTTACATATTATAATCTTTAATTTTGTTAAAAAATACAA
1 TTAAATTAAAAAAATTATCTTTTCAATTTACATATTATAATCTTTAATTTTGTTAAAAAATACAA
22769494 TATTTTTTAATTTTGTTCTTTATTTTATATGCATAAATTTTATTTGT-ATTAATTTT-AAT-ATT
66 TATTTTTTAATTTTGTTCTTTATTTTATATGCATAAATTTTATTTGTAATTAATTTTAAATAATT
22769556 AATTCTTA
131 AA-TCTTA
22769564 NTTAAATTAAAAAAATAATTATCTTTTCAATTTACATATTATAATCTTTAATTTTGTTAAAAAAT
1 -TTAAATT--AAAAA-AATTATCTTTTCAATTTACATATTATAATCTTTAATTTTGTTAAAAAAT
22769629 ACAATATTTTTTAATTTTGTTCTTTATTTTATATGCATAAATTTTATTTGTAATTAATTTTAAAT
62 ACAATATTTTTTAATTTTGTTCTTTATTTTATATGCATAAATTTTATTTGTAATTAATTTTAAAT
22769694 AATTAATCTTA
127 AATTAATCTTA
22769705 T
1 T
22769706 GGATGATCTA
Statistics
Matches: 135, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
136 7 0.05
138 5 0.04
139 100 0.74
140 10 0.07
141 8 0.06
142 5 0.04
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (137 bp):
TTAAATTAAAAAAATTATCTTTTCAATTTACATATTATAATCTTTAATTTTGTTAAAAAATACAA
TATTTTTTAATTTTGTTCTTTATTTTATATGCATAAATTTTATTTGTAATTAATTTTAAATAATT
AATCTTA
Found at i:22770587 original size:22 final size:22
Alignment explanation
Indices: 22770544--22770609 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
22770534 CAAAAATACC
*
22770544 TTTT-ATT-ATAAT-ATATAAT
1 TTTTAATTAATAATAATTTAAT
*
22770563 TTTTAATTTAAT-TTAATTTAAT
1 TTTTAA-TTAATAATAATTTAAT
22770585 TTTTAATTAATAATAATTTATAT
1 TTTTAATTAATAATAATTTA-AT
22770608 TT
1 TT
22770610 ATTTAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 8 0.21
22 21 0.55
23 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAATTAATAATAATTTAAT
Found at i:22770757 original size:18 final size:20
Alignment explanation
Indices: 22770734--22770772 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
22770724 AATTAATAAT
22770734 TTTAAT-TA-ATTTTTTAAA
1 TTTAATATATATTTTTTAAA
22770752 TTTAATATATTATTTTTTAAA
1 TTTAATATA-TATTTTTTAAA
22770773 AAATATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
21 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATATATATTTTTTAAA
Found at i:22771495 original size:24 final size:25
Alignment explanation
Indices: 22771462--22771519 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
22771452 GTGTCTCACC
22771462 AAAATAAAGA-AAAAAATAAATAATT
1 AAAATAAAGAGAAAAAAT-AATAATT
*
22771487 AAAA-AAAGAGAAAAGATAATAA-T
1 AAAATAAAGAGAAAAAATAATAATT
22771510 AAAGATAAAG
1 AAA-ATAAAG
22771520 GCAATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 4 0.14
24 11 0.38
25 14 0.48
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (25 bp):
AAAATAAAGAGAAAAAATAATAATT
Found at i:22772203 original size:19 final size:19
Alignment explanation
Indices: 22772168--22772205 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22772158 TTTTAGGCAA
*
22772168 AAAGAGAGAGGAGTTTTTT
1 AAAGAGAGAAGAGTTTTTT
*
22772187 AAAGAGAGAA-AGATTTTT
1 AAAGAGAGAAGAGTTTTTT
22772205 A
1 A
22772206 GGGACAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (19 bp):
AAAGAGAGAAGAGTTTTTT
Found at i:22777560 original size:21 final size:22
Alignment explanation
Indices: 22777535--22777575 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22777525 TCTAGGTGGA
*
22777535 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
22777556 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
22777576 ACAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:22777581 original size:22 final size:21
Alignment explanation
Indices: 22777535--22777581 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22777525 TCTAGGTGGA
* **
22777535 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGAC
22777556 AAAATTCAAGGAAACAAGTGAC
1 AAAATTCAAGGAAA-AAGTGAC
22777578 AAAA
1 AAAA
22777582 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGAC
Found at i:22786536 original size:32 final size:32
Alignment explanation
Indices: 22786498--22786559 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
22786488 TAAAGTAAGA
22786498 GTCCAAGTATCAATGAATACTAATTGTCAAGC
1 GTCCAAGTATCAATGAATACTAATTGTCAAGC
22786530 GTCCAAGTATCAATGAATACTAATTGTCAA
1 GTCCAAGTATCAATGAATACTAATTGTCAA
22786560 AATTCAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (32 bp):
GTCCAAGTATCAATGAATACTAATTGTCAAGC
Found at i:22789794 original size:21 final size:20
Alignment explanation
Indices: 22789768--22789806 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
22789758 GCTTGGTGTA
22789768 GTCGACTATGGCTTCATTAGG
1 GTCGACTATGGCTT-ATTAGG
22789789 GTCGACTATGGCTTATTA
1 GTCGACTATGGCTTATTA
22789807 ATTTCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTCGACTATGGCTTATTAGG
Found at i:22800387 original size:38 final size:39
Alignment explanation
Indices: 22800345--22800447 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 39
22800335 ATAGTGCCCG
*
22800345 TGTGCACGATGTGGGGGGATGTACACGAT-AGCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGAGC-CGGATA
* * * *
22800383 TGTGCACGATGTGGGGGGATGCACATGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGAT-GAGCCGGATA
22800423 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
22800448 TGAGCCGGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 27 0.48
39 3 0.05
40 26 0.46
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGTACACGATGAGCCGGATA
Found at i:22800438 original size:40 final size:38
Alignment explanation
Indices: 22800345--22800450 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 38
22800335 ATAGTGCCCG
* *
22800345 TGTGCACGATGTGGGGGGATGTACACGATAGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATAGCACGGAT
* * *
22800383 TGTGCACGATGTGGGGGGATGCACATGATGGTGC-CGGCT
1 TGTGCACGATGTGGGGGGATGTACATGAT--AGCACGGAT
22800422 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
22800451 GCCGGGAGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 27 0.46
39 3 0.05
40 29 0.49
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.24
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATAGCACGGAT
Found at i:22806767 original size:47 final size:47
Alignment explanation
Indices: 22806694--22806897 Score: 201
Period size: 47 Copynumber: 4.3 Consensus size: 47
22806684 GTATTTAATC
* * ** * *
22806694 ATTTTAAAGTTGCGTAACCTTGTTTAGAAATGAGGAACTTTTCCAAT
1 ATTTTAAAGTTGTGTATCCTCATTTAGAGATGAGGAGCTTTTCCAAT
* *
22806741 AATTTAAAGTTGTGTATCCTCATTTAGAGATGAGGAGTTTTTCCAAT
1 ATTTTAAAGTTGTGTATCCTCATTTAGAGATGAGGAGCTTTTCCAAT
* * * * *
22806788 CATTTTAAAGTTATATATCCTCATTTAGAGATGAAGAGCTTTCCCATT
1 -ATTTTAAAGTTGTGTATCCTCATTTAGAGATGAGGAGCTTTTCCAAT
*** * * **
22806836 ATTTTAAAGTTACATAGCTTCATTTAGAGATGAAAAGCTTTTCCAATT
1 ATTTTAAAGTTGTGTATCCTCATTTAGAGATGAGGAGCTTTTCCAA-T
*
22806884 CTTTTAAAGTTGTG
1 ATTTTAAAGTTGTG
22806898 GAGGTTTTCT
Statistics
Matches: 130, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
47 79 0.61
48 51 0.39
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (47 bp):
ATTTTAAAGTTGTGTATCCTCATTTAGAGATGAGGAGCTTTTCCAAT
Found at i:22806814 original size:48 final size:48
Alignment explanation
Indices: 22806716--22806894 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 48
22806706 CGTAACCTTG
* * * * * *
22806716 TTTAGAAATGAGGAACTTTTCCAAT-AATTTAAAGTTGTGTATCCTCA
1 TTTAGAGATGAAGAGCTTTTCCAATCATTTTAAAGTTATATATCCTCA
* *
22806763 TTTAGAGATGAGGAGTTTTTCCAATCATTTTAAAGTTATATATCCTCA
1 TTTAGAGATGAAGAGCTTTTCCAATCATTTTAAAGTTATATATCCTCA
* * * * *
22806811 TTTAGAGATGAAGAGC-TTTCCCATTATTTTAAAGTTACATAGCTTCA
1 TTTAGAGATGAAGAGCTTTTCCAATCATTTTAAAGTTATATATCCTCA
*
22806858 TTTAGAGATGAAAAGCTTTTCCAATTC-TTTTAAAGTT
1 TTTAGAGATGAAGAGCTTTTCCAA-TCATTTTAAAGTT
22806895 GTGGAGGTTT
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
47 63 0.56
48 49 0.43
49 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (48 bp):
TTTAGAGATGAAGAGCTTTTCCAATCATTTTAAAGTTATATATCCTCA
Found at i:22807090 original size:48 final size:48
Alignment explanation
Indices: 22806902--22807460 Score: 459
Period size: 49 Copynumber: 11.7 Consensus size: 48
22806892 GTTGTGGAGG
* * * *
22806902 TTTTCTAATCATTTTAAAGTTGCAAG-AGGCTCGCTTAAAGATGAGGAGC-
1 TTTTC-AATCATTTTAAAGTTG--TGTAGCCTCGTTTAGAGATGAGGAGCT
* * *
22806951 TTTTCTAATCATTTTAAATTTGTAGGAGCCTCGTTTAAAGATGAGGAGCT
1 TTTTC-AATCATTTTAAAGTTGT-GTAGCCTCGTTTAGAGATGAGGAGCT
* * *
22807001 TTTTCCAATCATTTTAAAGTTGCGTAGCCTCGTTTAAAGATGAAGAGCT
1 TTTT-CAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* * * *
22807050 TTTTCAATCATTTTAAAGTTGTGCAACCTCATTTAGAGATGAGGAACT
1 TTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
** * ** * *
22807098 TTCCCCATCATTTTAAAGTTGCATAGCCTTGTTTAGAGATGTGGAG-T
1 TTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* * * *
22807145 TTTTCTATTCATTTTAAAGTTGTAAG-AGCCTTGTTTAAAAATGAGGAGCTT
1 TTTTC-AATCATTTTAAAGTTGT--GTAGCCTCGTTTAGAGATGAGGAGC-T
** * * **
22807196 TTTTCAATCATTTTAAAGTTACGTAGCTTCATTTAGAGACAAGGAGCT
1 TTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* *
22807244 TTCTCAATCATTTTAAAGTTGTGTAGCCTCCTTTAGAGAT---GAG-T
1 TTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* * * *
22807288 TTTTCTGATCATTTTAAAGTTGTGTAGCCTCGTTTAGAAATAAGGAGTT
1 TTTTC-AATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* **
22807337 TTTTCCAAGCATTTTAAAGTTGCATAGCCTCGTTTAGAGATGAGGAG--
1 TTTT-CAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* * * * *
22807384 TTTCCAATTATTCT----TTAT-T-GCCTCGCTTAGAGATGAGGAGC-
1 TTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
* *
22807425 TTTTCAATTATTTTAAAAGTTGTGTAGCCTCATTTA
1 TTTTCAATCATTTT-AAAGTTGTGTAGCCTCGTTTA
22807461 AAGGTAAAGA
Statistics
Matches: 413, Mismatches: 73, Indels: 49
0.77 0.14 0.09
Matches are distributed among these distances:
40 20 0.05
41 13 0.03
42 2 0.00
44 5 0.01
45 35 0.08
46 10 0.02
47 8 0.02
48 134 0.32
49 145 0.35
50 34 0.08
51 7 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (48 bp):
TTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAGGAGCT
Found at i:22807191 original size:194 final size:195
Alignment explanation
Indices: 22806909--22807286 Score: 535
Period size: 194 Copynumber: 1.9 Consensus size: 195
22806899 AGGTTTTCTA
* *
22806909 ATCATTTTAAAGTTGCAAGAGGCTCGCTTAAAGATGAGGAGCTTTTCTAATCATTTTAAATTTGT
1 ATCATTTTAAAGTTGCAAGAGCCTCGCTTAAAGATGAGGAGCTTTTCTAATCATTTTAAAGTTGT
* * * *
22806974 AGGAGCCTCGTTTAAAGATGAGGAGCTTTTTCCAATCATTTTAAAGTTGCGTAGCCTCGTTTAAA
66 AAGAGCCTCGTTTAAAAATGAGGAGCTTTTTCCAATCATTTTAAAGTTACGTAGCCTCATTTAAA
* *
22807039 GATGAA-GAGCTTTTTCAATCATTTTAAAGTTGTGCAACCTCATTTAGAGATGAGGAACTTTCCC
131 GA-CAAGGAGCTTTCTCAATCATTTTAAAGTTGTGCAACCTCATTTAGAGATGAGGAACTTTCCC
22807103 C
195 C
* * * * * * *
22807104 ATCATTTTAAAGTTGC-ATAGCCTTGTTTAGAGATGTGGAGTTTTTCTATTCATTTTAAAGTTGT
1 ATCATTTTAAAGTTGCAAGAGCCTCGCTTAAAGATGAGGAGCTTTTCTAATCATTTTAAAGTTGT
* * * *
22807168 AAGAGCCTTGTTTAAAAATGAGGAGCTTTTTTCAATCATTTTAAAGTTACGTAGCTTCATTTAGA
66 AAGAGCCTCGTTTAAAAATGAGGAGCTTTTTCCAATCATTTTAAAGTTACGTAGCCTCATTTAAA
* * *
22807233 GACAAGGAGCTTTCTCAATCATTTTAAAGTTGTGTAGCCTCCTTTAGAGATGAG
131 GACAAGGAGCTTTCTCAATCATTTTAAAGTTGTGCAACCTCATTTAGAGATGAG
22807287 TTTTTCTGAT
Statistics
Matches: 160, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
193 2 0.01
194 142 0.89
195 16 0.10
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (195 bp):
ATCATTTTAAAGTTGCAAGAGCCTCGCTTAAAGATGAGGAGCTTTTCTAATCATTTTAAAGTTGT
AAGAGCCTCGTTTAAAAATGAGGAGCTTTTTCCAATCATTTTAAAGTTACGTAGCCTCATTTAAA
GACAAGGAGCTTTCTCAATCATTTTAAAGTTGTGCAACCTCATTTAGAGATGAGGAACTTTCCCC
Found at i:22808113 original size:18 final size:20
Alignment explanation
Indices: 22808078--22808115 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22808068 TGGGCATAAG
*
22808078 GAGAGAGAAGAGTTTTTTTA
1 GAGAGAGAAGAGTATTTTTA
22808098 GAGAGAGAA-AG-ATTTTTA
1 GAGAGAGAAGAGTATTTTTA
22808116 AGAAGGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (20 bp):
GAGAGAGAAGAGTATTTTTA
Found at i:22816159 original size:2 final size:2
Alignment explanation
Indices: 22816152--22816177 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22816142 GGATATTCAC
22816152 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22816178 TCATAACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22830471 original size:21 final size:21
Alignment explanation
Indices: 22830429--22830471 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
22830419 CTTGTACCGG
*
22830429 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
22830450 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
22830471 T
1 T
22830472 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:22838175 original size:97 final size:99
Alignment explanation
Indices: 22837995--22838208 Score: 267
Period size: 97 Copynumber: 2.2 Consensus size: 99
22837985 TTTTCTAATA
* * *
22837995 GTAACAACTTTTTTTTTCAATATGCCATGTAATTTGGTTTCTATCCTTGTATTTCACTAGGACAT
1 GTAACAACTTTTTTTTTTAATATGCCATGTAACTTAGTTTCTATCCTTGTATTTCACTAGGACAT
* *
22838060 AAATTGTTAGAGTCAAATACCTTAAACA-AGGCGT
66 AAACTCTTAGAGTCAAATACCTTAAACATA-GCGT
* * * *
22838094 GTAACAA-TTTTTTTTTTAA-ATGGCGTGTAACTTAGTCTT-TATCTTTGTATTTCACTAGGATA
1 GTAACAACTTTTTTTTTTAATATGCCATGTAACTTAGT-TTCTATCCTTGTATTTCACTAGGACA
*
22838156 TAAACTCTT-GAAGTTAAATACCTTAAACATAGCGT
65 TAAACTCTTAG-AGTCAAATACCTTAAACATAGCGT
*
22838191 GTAATAACTTTTTTTTTT
1 GTAACAACTTTTTTTTTT
22838209 CTACATGATG
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
96 1 0.01
97 68 0.68
98 24 0.24
99 7 0.07
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (99 bp):
GTAACAACTTTTTTTTTTAATATGCCATGTAACTTAGTTTCTATCCTTGTATTTCACTAGGACAT
AAACTCTTAGAGTCAAATACCTTAAACATAGCGT
Found at i:22838415 original size:129 final size:126
Alignment explanation
Indices: 22838092--22838486 Score: 451
Period size: 126 Copynumber: 3.1 Consensus size: 126
22838082 TAAACAAGGC
* * * * *
22838092 GTGTAACAATTTTTTTTTTAA-ATGGCGTGTAACTT-AGTCTTTATCTTTGTATTTCACTAGGAT
1 GTGTAACAATATTTTTTTTAACATGGCATGTAACTTGA-TCTCTATCTTTGTATTTCACTAGAAC
* * * * *
22838155 ATAAACTCTTGAAGTTAAATACCTTAAACATAGCGTGTAATAACTTTTTTTTTTCTACATGAT
65 ATAAACTCTTGAAGTTAAATACCTTAAACATGGCGTGTAACAAC-ATTTTTTTTCAATATGAT
* ** * * * *
22838218 GTGCAACAA-AAATTTTTTAACATGGCATGTAACTTGGTTTCTATCTTTGTATTTTATTAGAACA
1 GTGTAACAATATTTTTTTTAACATGGCATGTAACTTGATCTCTATCTTTGTATTTCACTAGAACA
* * *
22838282 TAAACTCTT-ATAGTTAAACACCTTAAACATGGCATGTAACAACATTTTTGTTTCAATATGGT
66 TAAACTCTTGA-AGTTAAATACCTTAAACATGGCGTGTAACAACATTTTT-TTTCAATATGAT
* * *
22838344 GTATAACAATATTATTTTTTAAACAAGGCATGTAACTTGATCTGTATCTTTGTATTTCACTAGAA
1 GTGTAACAATATT-TTTTTT-AACATGGCATGTAACTTGATCTCTATCTTTGTATTTCACTAGAA
* * * *
22838409 CATAAACTCTTGAAGTTAAATACTTTAAACATGACGTGCAAC-A-ATTTTTTTTCAATATGAC
64 CATAAACTCTTGAAGTTAAATACCTTAAACATGGCGTGTAACAACATTTTTTTTCAATATGAT
22838470 GTGTAACAATATTTTTT
1 GTGTAACAATATTTTTT
22838487 CATAGTTTTC
Statistics
Matches: 223, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
125 18 0.08
126 117 0.52
127 7 0.03
128 7 0.03
129 73 0.33
130 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (126 bp):
GTGTAACAATATTTTTTTTAACATGGCATGTAACTTGATCTCTATCTTTGTATTTCACTAGAACA
TAAACTCTTGAAGTTAAATACCTTAAACATGGCGTGTAACAACATTTTTTTTCAATATGAT
Found at i:22838477 original size:26 final size:26
Alignment explanation
Indices: 22838439--22838488 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
22838429 TACTTTAAAC
*
22838439 ATGACGTGCAACAATTTTTTTTCAAT
1 ATGACGTGCAACAATATTTTTTCAAT
*
22838465 ATGACGTGTAACAATATTTTTTCA
1 ATGACGTGCAACAATATTTTTTCA
22838489 TAGTTTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (26 bp):
ATGACGTGCAACAATATTTTTTCAAT
Found at i:22845808 original size:14 final size:14
Alignment explanation
Indices: 22845789--22845815 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22845779 TTGGTTTTAA
22845789 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
22845803 TTTTAGTTAATTA
1 TTTTAGTTAATTA
22845816 ATTAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:22861569 original size:43 final size:42
Alignment explanation
Indices: 22861509--22861599 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 42
22861499 ACCATCCCAC
* *
22861509 CATCGTCAGCTCATGTGCACTCCCCACTCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCACAC-CGCACATAGCTGGGT
*
22861552 CGTCATCAGCTCATGTGCACTCCACACCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCACACCGCACATAGCTGGGT
22861594 CATCAT
1 CATCAT
22861600 TATCACATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 20 0.45
43 24 0.55
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCACACCGCACATAGCTGGGT
Found at i:22864736 original size:13 final size:13
Alignment explanation
Indices: 22864718--22864742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22864708 TTTCAGAAAA
22864718 TTTATAAAATCAT
1 TTTATAAAATCAT
22864731 TTTATAAAATCA
1 TTTATAAAATCA
22864743 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:22869938 original size:33 final size:33
Alignment explanation
Indices: 22869860--22869939 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
22869850 ATACTAAATT
**
22869860 AGCATGTCACATCATCATCAATTATGATATATC
1 AGCATGTCATGTCATCATCAATTATGATATATC
** * * * *
22869893 AATATATTATGTCATTATCAATTATGATATGTC
1 AGCATGTCATGTCATCATCAATTATGATATATC
22869926 AGCATGTCATGTCA
1 AGCATGTCATGTCA
22869940 GCACCATGCG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (33 bp):
AGCATGTCATGTCATCATCAATTATGATATATC
Found at i:22870027 original size:30 final size:30
Alignment explanation
Indices: 22869993--22870057 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
22869983 AATAATTAAT
*
22869993 TATAAAGGTTTATTTGACTCAAAATAAAAG
1 TATAAAGGCTTATTTGACTCAAAATAAAAG
** *
22870023 TATAAAGGCTTATTTGGTTTAAAATAAAAG
1 TATAAAGGCTTATTTGACTCAAAATAAAAG
22870053 TATAA
1 TATAA
22870058 GGATTTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (30 bp):
TATAAAGGCTTATTTGACTCAAAATAAAAG
Found at i:22870501 original size:42 final size:41
Alignment explanation
Indices: 22870441--22870525 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 41
22870431 AAATTACTCT
22870441 AAAAACTCTTAAAAATAAAGATAAAAATAATTAATTGAATA
1 AAAAACTCTTAAAAATAAAGATAAAAATAATTAATTGAATA
22870482 ANAAAACTCTTAAAAATAAAGATAAAAATAATTAATTGAATA
1 A-AAAACTCTTAAAAATAAAGATAAAAATAATTAATTGAATA
22870524 AA
1 AA
22870526 TTTAATAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (41 bp):
AAAAACTCTTAAAAATAAAGATAAAAATAATTAATTGAATA
Found at i:22873558 original size:20 final size:23
Alignment explanation
Indices: 22873521--22873565 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
22873511 CATTTAACTA
22873521 TTTATATTTTATGTATTAT-AGT
1 TTTATATTTTATGTATTATAAGT
22873543 TTTATA-TTTA-GTATTATAAGT
1 TTTATATTTTATGTATTATAAGT
22873564 TT
1 TT
22873566 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (23 bp):
TTTATATTTTATGTATTATAAGT
Found at i:22882858 original size:19 final size:19
Alignment explanation
Indices: 22882834--22882871 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22882824 ACTTCTAAAC
22882834 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
22882853 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
22882872 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:22888886 original size:21 final size:21
Alignment explanation
Indices: 22888862--22888902 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22888852 ACATATGTAC
*
22888862 CTTGTGTAAATTAAGACAACT
1 CTTGTCTAAATTAAGACAACT
* *
22888883 CTTGTCTTAATTAAGGCAAC
1 CTTGTCTAAATTAAGACAAC
22888903 ATCTAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
CTTGTCTAAATTAAGACAACT
Found at i:22892821 original size:35 final size:34
Alignment explanation
Indices: 22892776--22892971 Score: 166
Period size: 35 Copynumber: 5.8 Consensus size: 34
22892766 TTAGTTGTTG
* *
22892776 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTATA
1 GGTTGTGGTTGAGCCCGTGAAAAACCATTGTT-TA
** * *
22892811 GGTTGTGGTTGAGCCTTTGAAAAACCACT-TTGA
1 GGTTGTGGTTGAGCCCGTGAAAAACCATTGTTTA
*
22892844 -GTTTTGGTTGAGCCCGTGAAAAACCATTGTTGTA
1 GGTTGTGGTTGAGCCCGTGAAAAACCATTGTT-TA
** ** *
22892878 GGTTGTGGTTGAGCCTTTGAAAAA-C-TACTTTG
1 GGTTGTGGTTGAGCCCGTGAAAAACCATTGTTTA
* * * **
22892910 GGTTTTGGTTGAGCTCGTGAAAAACGATTGTGAAA
1 GGTTGTGGTTGAGCCCGTGAAAAACCATTGT-TTA
**
22892945 GGTTGTGGTTGAGCCTTTGAAAAACCA
1 GGTTGTGGTTGAGCCCGTGAAAAACCA
22892972 CTTTGGGTTT
Statistics
Matches: 123, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
32 45 0.37
33 6 0.05
34 6 0.05
35 66 0.54
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (34 bp):
GGTTGTGGTTGAGCCCGTGAAAAACCATTGTTTA
Found at i:22892857 original size:32 final size:32
Alignment explanation
Indices: 22892816--22892988 Score: 161
Period size: 32 Copynumber: 5.2 Consensus size: 32
22892806 TTATAGGTTG
22892816 TGGTTGAGCCTTTGAAAAACCACTTTGAGTTT
1 TGGTTGAGCCTTTGAAAAACCACTTTGAGTTT
** * *
22892848 TGGTTGAGCCCGTGAAAAACCATTGTTGTAGGTTG
1 TGGTTGAGCCTTTGAAAAACCACT-TTG-A-GTTT
* *
22892883 TGGTTGAGCCTTTGAAAAACTACTTTGGGTTT
1 TGGTTGAGCCTTTGAAAAACCACTTTGAGTTT
* * *
22892915 TGGTTGAG-CTCGTGAAAAACGA-TTGTGAAAGGTTG
1 TGGTTGAGCCT-TTGAAAAACCACTT-TG--A-GTTT
*
22892950 TGGTTGAGCCTTTGAAAAACCACTTTGGGTTT
1 TGGTTGAGCCTTTGAAAAACCACTTTGAGTTT
*
22892982 TAGTTGA
1 TGGTTGA
22892989 TCCTGGTAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
31 4 0.04
32 52 0.46
33 3 0.03
34 4 0.04
35 45 0.40
36 4 0.04
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (32 bp):
TGGTTGAGCCTTTGAAAAACCACTTTGAGTTT
Found at i:22892860 original size:67 final size:67
Alignment explanation
Indices: 22892773--22892988 Score: 351
Period size: 67 Copynumber: 3.2 Consensus size: 67
22892763 AAGTTAGTTG
*
22892773 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACCA
22892838 CT
66 CT
* * *
22892840 TTGAGTTTTGGTTGAGCCCGTGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACTA
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACCA
22892905 CT
66 CT
* * * *
22892907 TTGGGTTTTGGTTGAGCTCGTGAAAAACGATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACCA
22892972 CT
66 CT
*
22892974 TTGGGTTTTAGTTGA
1 TTGGGTTTTGGTTGA
22892989 TCCTGGTAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 137 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACCA
CT
Found at i:22901123 original size:17 final size:17
Alignment explanation
Indices: 22901097--22901129 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22901087 AACTATGCAT
22901097 ACACTAAGGGGGAGCAC
1 ACACTAAGGGGGAGCAC
*
22901114 ACACTTAGGGGGAGCA
1 ACACTAAGGGGGAGCA
22901130 ATCCTCTATT
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:0.33, C:0.21, G:0.36, T:0.09
Consensus pattern (17 bp):
ACACTAAGGGGGAGCAC
Found at i:22902083 original size:67 final size:67
Alignment explanation
Indices: 22902005--22902180 Score: 266
Period size: 67 Copynumber: 2.6 Consensus size: 67
22901995 AAGTTAGTTG
*
22902005 TTGGGTTTTGGTTGATCTCGTAAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCTCGTAAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
22902069 ACT
65 ACT
* *
22902072 TTGGGTTTTGGTTGAGCTCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCTCGTAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
22902137 CT
66 CT
* * *
22902139 TTGGGTTTTAGTTGATCTTGGT-AAAAACTATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATC-TCGTAAAAAACCATTGTGAAAGGTT
22902181 TTGGCTAAAC
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
66 2 0.02
67 95 0.95
68 3 0.03
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCTCGTAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
CT
Found at i:22902096 original size:32 final size:32
Alignment explanation
Indices: 22902005--22902153 Score: 124
Period size: 35 Copynumber: 4.5 Consensus size: 32
22901995 AAGTTAGTTG
* * *
22902005 TTGGGTTTTGGTTGA-TCTCGTAAAAAACCATT
1 TTGGGTTTTGGTTGAGCCT-GTGAAAAACCACT
* *
22902037 GTTGTAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 -TTG--GGTTTTGGTTGAGCCTGTGAAAAACCACT
22902072 TTGGGTTTTGGTTGAG-CTCGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCT-GTGAAAAACCACT
* *
22902103 TGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 T-TG---GGTTTTGGTTGAGCCTGTGAAAAACCACT
*
22902139 TTGGGTTTTAGTTGA
1 TTGGGTTTTGGTTGA
22902154 TCTTGGTAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
31 4 0.04
32 34 0.36
33 3 0.03
34 3 0.03
35 45 0.47
36 6 0.06
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
Found at i:22907236 original size:20 final size:20
Alignment explanation
Indices: 22907213--22907268 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
22907203 TAAATATAAA
22907213 TAACATAAAATTAACATTAT
1 TAACATAAAATTAACATTAT
* *
22907233 TAACTTAAAATAAACATT-T
1 TAACATAAAATTAACATTAT
*
22907252 AAACAT-AAATTAA-ATTA
1 TAACATAAAATTAACATTA
22907269 AACTAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.10
18 6 0.20
19 5 0.17
20 16 0.53
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (20 bp):
TAACATAAAATTAACATTAT
Found at i:22907265 original size:19 final size:20
Alignment explanation
Indices: 22907214--22907265 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
22907204 AAATATAAAT
*
22907214 AACATAAAATT-AACATTATT
1 AACAT-AAATTAAACATTATA
* *
22907234 AACTTAAAATAAACATT-TA
1 AACATAAATTAAACATTATA
22907253 AACATAAATTAAA
1 AACATAAATTAAA
22907266 TTAAACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
AACATAAATTAAACATTATA
Found at i:22914385 original size:38 final size:39
Alignment explanation
Indices: 22914299--22914401 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 39
22914289 ACCCGGCTCA
*
22914299 TGTACATCCCCCCACATCATGCAC-ATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACAATAG-CGG-ACCATCG
* *
22914339 TGTGCATCCCCCCACATCGTGCACAATTAG-TG-CCATCG
1 TGTACATCCCCCCACATCGTGCACAA-TAGCGGACCATCG
22914377 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
22914402 TGGGCACTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 30 0.53
40 23 0.40
41 1 0.02
42 3 0.05
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACAATAGCGGACCATCG
Found at i:22920393 original size:19 final size:19
Alignment explanation
Indices: 22920369--22920410 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22920359 CATCTTCTTC
22920369 TTCAAGCTCCCACCCCATT
1 TTCAAGCTCCCACCCCATT
* **
22920388 TTCAAGCTTCCATGCCATT
1 TTCAAGCTCCCACCCCATT
22920407 TTCA
1 TTCA
22920411 CCTTGCCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.33
Consensus pattern (19 bp):
TTCAAGCTCCCACCCCATT
Found at i:22929983 original size:13 final size:13
Alignment explanation
Indices: 22929965--22929990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22929955 TTTCAGAAAA
22929965 TTTATAAAATCAT
1 TTTATAAAATCAT
22929978 TTTATAAAATCAT
1 TTTATAAAATCAT
22929991 AATTTCTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:22931716 original size:27 final size:29
Alignment explanation
Indices: 22931686--22931749 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
22931676 GGGCATTAAG
* * * *
22931686 GTGTAACAA-AATGT-TTTTGAATATGTC
1 GTGTAACAACAATATATTTTCAACATGGC
22931713 GTGTAACAACAATATATTTTCAACATGGC
1 GTGTAACAACAATATATTTTCAACATGGC
22931742 GTGTAACA
1 GTGTAACA
22931750 GTAATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.29
28 4 0.13
29 18 0.58
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (29 bp):
GTGTAACAACAATATATTTTCAACATGGC
Found at i:22931952 original size:45 final size:45
Alignment explanation
Indices: 22931845--22931952 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
22931835 CAACATGGCA
* *
22931845 TGTAACAACCTAACCATAGCTTGTCACATGTTTTTATACATGACG
1 TGTAACAACCTAACCATGGCTTGTCACATATTTTTATACATGACG
* *
22931890 TGTAACAACCTAACCATGGCTTGTTACATATTTTTGTACAT-AGCG
1 TGTAACAACCTAACCATGGCTTGTCACATATTTTTATACATGA-CG
22931935 TGTAACAACCTAACCATG
1 TGTAACAACCTAACCATG
22931953 ACCTGTAACA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (45 bp):
TGTAACAACCTAACCATGGCTTGTCACATATTTTTATACATGACG
Found at i:22931953 original size:66 final size:65
Alignment explanation
Indices: 22931883--22932071 Score: 261
Period size: 66 Copynumber: 2.9 Consensus size: 65
22931873 TGTTTTTATA
* *
22931883 CATGACGTGTAACAACCTAACCATGGCTTGTTACATATTTTTGTACATAGCGTGTAACAACCTAA
1 CATGACATGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACAT-GCGTGTAACAACCTAA
22931948 C
65 C
* * * *
22931949 CATGACCTGTAACAGCCTAACTATGGCTTGTCATATATTTTTGTACATGACGTGTAACAACCTAA
1 CATGACATGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACATG-CGTGTAACAACCTAA
*
22932014 T
65 C
* * *
22932015 CATGGCATGTAACAACCTAACCATGGCTTGTCACATATATTTATACATGGCGTGTAA
1 CATGACATGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACAT-GCGTGTAA
22932072 TATCATAGTG
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
65 1 0.01
66 106 0.98
67 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (65 bp):
CATGACATGTAACAACCTAACCATGGCTTGTCACATATTTTTGTACATGCGTGTAACAACCTAAC
Found at i:22932025 original size:21 final size:21
Alignment explanation
Indices: 22932001--22932041 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22931991 GTACATGACG
*
22932001 TGTAACAACCTAATCATGGCA
1 TGTAACAACCTAACCATGGCA
22932022 TGTAACAACCTAACCATGGC
1 TGTAACAACCTAACCATGGC
22932042 TTGTCACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (21 bp):
TGTAACAACCTAACCATGGCA
Found at i:22935283 original size:20 final size:20
Alignment explanation
Indices: 22935258--22935303 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
22935248 TTTTGACCCC
22935258 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
22935278 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
22935298 ATTTGA
1 ATTTGA
22935304 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:22953903 original size:28 final size:29
Alignment explanation
Indices: 22953862--22953921 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
22953852 GTCTATGGGC
*
22953862 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
22953890 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
22953920 AA
1 AA
22953922 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:22959136 original size:23 final size:23
Alignment explanation
Indices: 22959106--22959188 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
22959096 TGAGCTAGTG
22959106 ATGATGATGATGGGATGGTGTGT
1 ATGATGATGATGGGATGGTGTGT
22959129 ATGATGATGATGGGATGGTGTGT
1 ATGATGATGATGGGATGGTGTGT
* *
22959152 ATGATGATGATGGGATGGTATGC
1 ATGATGATGATGGGATGGTGTGT
*
22959175 ATAATGATGATGGG
1 ATGATGATGATGGG
22959189 TATATACGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.25, C:0.01, G:0.41, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGGTGTGT
Found at i:22967872 original size:20 final size:19
Alignment explanation
Indices: 22967826--22967873 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
22967816 CCAACCCATG
22967826 AAGAAAAAAAAAAAGAAAA
1 AAGAAAAAAAAAAAGAAAA
* * *
22967845 AGGGAAAAAATAAAATAAAA
1 A-AGAAAAAAAAAAAGAAAA
22967865 AAGAAAAAA
1 AAGAAAAAA
22967874 TTATTTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (19 bp):
AAGAAAAAAAAAAAGAAAA
Found at i:22971501 original size:19 final size:19
Alignment explanation
Indices: 22971477--22971519 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
22971467 TAACAGGAAA
22971477 GAAAGAAAAGTACTCATCT
1 GAAAGAAAAGTACTCATCT
22971496 GAAAGAAAAGTACTCATCT
1 GAAAGAAAAGTACTCATCT
*
22971515 CAAAG
1 GAAAG
22971520 TAATGCTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (19 bp):
GAAAGAAAAGTACTCATCT
Found at i:22973372 original size:17 final size:17
Alignment explanation
Indices: 22973350--22973400 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
22973340 TAAGTAAAAT
22973350 AAGCACACACTAAGGGG
1 AAGCACACACTAAGGGG
*
22973367 AAGCACATACTAAGGGG
1 AAGCACACACTAAGGGG
* * *
22973384 GAGCACTCACTTAGGGG
1 AAGCACACACTAAGGGG
22973401 GAGAAATCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.31, T:0.12
Consensus pattern (17 bp):
AAGCACACACTAAGGGG
Found at i:22976889 original size:114 final size:113
Alignment explanation
Indices: 22976689--22976915 Score: 436
Period size: 114 Copynumber: 2.0 Consensus size: 113
22976679 ATATATATAA
22976689 CACAAGTGTACAGTCTCCACTTACTCAATTTCCAAAACCAGTATTCAATTTCAAAACAAGTTATA
1 CACAAGTGTACAGTCTCCACTTACTCAATTTCCAAAACCAGTATTCAATTTCAAAACAAGTTATA
*
22976754 AATCTCATTTCGTTTAATCAACACTTCAATTATAAAACATAATAGTTT
66 AATCTCATTTCGTTTAATCAACACTTCAATTATAAAACACAATAGTTT
22976802 NCACAAGTGTACAGTCTCCACTTACTCAATTTCCAAAACCAGTATTCAATTTCAAAACAAGTTAT
1 -CACAAGTGTACAGTCTCCACTTACTCAATTTCCAAAACCAGTATTCAATTTCAAAACAAGTTAT
22976867 AAATCTCATTTCGTTTAATCAACACTTCAATTATAAAACACAATAGTTT
65 AAATCTCATTTCGTTTAATCAACACTTCAATTATAAAACACAATAGTTT
22976916 GCAATTTAAA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (113 bp):
CACAAGTGTACAGTCTCCACTTACTCAATTTCCAAAACCAGTATTCAATTTCAAAACAAGTTATA
AATCTCATTTCGTTTAATCAACACTTCAATTATAAAACACAATAGTTT
Found at i:23001149 original size:22 final size:22
Alignment explanation
Indices: 23001109--23001152 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23001099 TTTAAAACAA
*
23001109 CTTTAAAACTAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
**
23001131 CTTTAAAACCAAATGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
23001153 ACCAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:23042228 original size:15 final size:15
Alignment explanation
Indices: 23042205--23042245 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
23042195 GATCAAAGAT
23042205 TTTGG-TTTTAAAGC
1 TTTGGATTTTAAAGC
*
23042219 TTTGGATTTTAAAGT
1 TTTGGATTTTAAAGC
*
23042234 TTTTGATTTTAA
1 TTTGGATTTTAA
23042246 GGTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.56
Consensus pattern (15 bp):
TTTGGATTTTAAAGC
Found at i:23045654 original size:22 final size:22
Alignment explanation
Indices: 23045629--23045678 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
23045619 CAAAGGATGA
23045629 TAATTGCCATAAATAAAGCATT
1 TAATTGCCATAAATAAAGCATT
23045651 TAATTGCCATAAATAAAGCATT
1 TAATTGCCATAAATAAAGCATT
23045673 TAATTG
1 TAATTG
23045679 AACTGAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (22 bp):
TAATTGCCATAAATAAAGCATT
Found at i:23046074 original size:19 final size:20
Alignment explanation
Indices: 23046047--23046092 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
23046037 AGGAGACAAG
*
23046047 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
23046066 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
23046085 ATAATATT
1 ATAATATT
23046093 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:23047924 original size:13 final size:13
Alignment explanation
Indices: 23047906--23047930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23047896 AGAGAAATTG
23047906 TGATTTTATAAAA
1 TGATTTTATAAAA
23047919 TGATTTTATAAA
1 TGATTTTATAAA
23047931 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23052730 original size:28 final size:29
Alignment explanation
Indices: 23052689--23052748 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
23052679 GTCTATGGGC
*
23052689 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
23052717 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
23052747 AA
1 AA
23052749 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:23055798 original size:2 final size:2
Alignment explanation
Indices: 23055791--23055822 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23055781 ACATACATAC
23055791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23055823 GAATGAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23056031 original size:12 final size:11
Alignment explanation
Indices: 23056000--23056036 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
23055990 TAACCATACA
23056000 AAAATTAATGC
1 AAAATTAATGC
23056011 AAAATTAATGC
1 AAAATTAATGC
23056022 AAAATATAATG-
1 AAAAT-TAATGC
23056033 AAAA
1 AAAA
23056037 CTATACCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.24
Consensus pattern (11 bp):
AAAATTAATGC
Found at i:23056041 original size:12 final size:12
Alignment explanation
Indices: 23056000--23056041 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
23055990 TAACCATACA
23056000 AAAAT-TAATGC
1 AAAATATAATGC
23056011 AAAAT-TAATGC
1 AAAATATAATGC
23056022 AAAATATAATG-
1 AAAATATAATGC
23056033 AAAACTATA
1 AAAA-TATA
23056042 CCCTAAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
AAAATATAATGC
Found at i:23056320 original size:19 final size:20
Alignment explanation
Indices: 23056293--23056338 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
23056283 AGGAGACAAG
*
23056293 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
23056312 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
23056331 ATAATATT
1 ATAATATT
23056339 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:23056783 original size:20 final size:20
Alignment explanation
Indices: 23056738--23056775 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23056728 TTTTGGCCCC
23056738 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
23056758 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
23056776 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:23059326 original size:18 final size:19
Alignment explanation
Indices: 23059284--23059329 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23059274 ATTAATAAAC
23059284 TATATTAATATAGTATAACT
1 TATATTAATATAG-ATAACT
* *
23059304 TATATTAGTATAG-TAAGT
1 TATATTAATATAGATAACT
23059322 TATATTAA
1 TATATTAA
23059330 ATTATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 11 0.48
20 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (19 bp):
TATATTAATATAGATAACT
Found at i:23061859 original size:45 final size:45
Alignment explanation
Indices: 23061795--23061884 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
23061785 ACCATAAAGT
23061795 AAGCTTGATAACAATTAAAGTACCTTTGACAGAAACTATATTACA
1 AAGCTTGATAACAATTAAAGTACCTTTGACAGAAACTATATTACA
23061840 AAGCTTGATAACAATTAAAGTACCTTTGACAGAAACTATATTACA
1 AAGCTTGATAACAATTAAAGTACCTTTGACAGAAACTATATTACA
23061885 TGTCAAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (45 bp):
AAGCTTGATAACAATTAAAGTACCTTTGACAGAAACTATATTACA
Found at i:23067491 original size:13 final size:13
Alignment explanation
Indices: 23067473--23067497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23067463 TTCCAGAAAA
23067473 TTTATAAAATCAT
1 TTTATAAAATCAT
23067486 TTTATAAAATCA
1 TTTATAAAATCA
23067498 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23074198 original size:213 final size:213
Alignment explanation
Indices: 23073830--23074247 Score: 646
Period size: 213 Copynumber: 2.0 Consensus size: 213
23073820 TTGTTTCCCT
* *
23073830 CTCAACTTCAACTCTTCTTCTTCTTCTTGTTTCAGATCAAACTTTTAACACACCTTCTTGATCTA
1 CTCAACTTCAACTCTTCTTCTTCTACTTGTTTCAGATCAAACTTTCAACACACCTTCTTGATCTA
23073895 AAACCTAGTACACACCCAACCTTACTTGAAACAACTCAAACCTCTCTTTGTTGAGACCTTTAGTG
66 AAACCTAGTACACACCCAACCTTACTTGAAACAACTCAAACCTCTCTTTGTTGAGACCTTTAGTG
* * * *
23073960 AATATTGATCATTAGTTTGATAGTATTTACGCTCAATCTCTTGCT-TTTCTACAGCATCCCTTAA
131 AATACTGATCATTAGTTTGATAGTATCTAAGCTCAATCTCTTGCTCTTT-GACAGCATCCCTTAA
23074024 AGAACGAAATTGCTTCCTA
195 AGAACGAAATTGCTTCCTA
23074043 CTCAACTTCAACTCATT-TTCTTCTACTTG-TTCTAGATCAAACTTTCAACACA-CTTCTTTGAT
1 CTCAACTTCAACTC-TTCTTCTTCTACTTGTTTC-AGATCAAACTTTCAACACACCTTC-TTGAT
* * * * *
23074105 CTAAAACCTGGTACACACCTAACCTTGCTTGAAGCAACTCAAACCTTTCTTTGTTGAGACCTTTA
63 CTAAAACCTAGTACACACCCAACCTTACTTGAAACAACTCAAACCTCTCTTTGTTGAGACCTTTA
*
23074170 GTGAATACTGATCATTAGTTTTATAGTATCTAAGCTCAATCTCTTGCTCTTTGACAGCATCCCTT
128 GTGAATACTGATCATTAGTTTGATAGTATCTAAGCTCAATCTCTTGCTCTTTGACAGCATCCCTT
* *
23074235 ATAGAATGAAATT
193 AAAGAACGAAATT
23074248 TCACCCTGTA
Statistics
Matches: 187, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
212 7 0.04
213 175 0.94
214 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (213 bp):
CTCAACTTCAACTCTTCTTCTTCTACTTGTTTCAGATCAAACTTTCAACACACCTTCTTGATCTA
AAACCTAGTACACACCCAACCTTACTTGAAACAACTCAAACCTCTCTTTGTTGAGACCTTTAGTG
AATACTGATCATTAGTTTGATAGTATCTAAGCTCAATCTCTTGCTCTTTGACAGCATCCCTTAAA
GAACGAAATTGCTTCCTA
Found at i:23080991 original size:21 final size:21
Alignment explanation
Indices: 23080965--23081011 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
23080955 CGATCACATC
23080965 TTGACTACCCAAAAAGGATAG
1 TTGACTACCCAAAAAGGATAG
23080986 TTGACTACCCAAAAAGGATAG
1 TTGACTACCCAAAAAGGATAG
23081007 TTGAC
1 TTGAC
23081012 ACTAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
TTGACTACCCAAAAAGGATAG
Found at i:23084363 original size:23 final size:23
Alignment explanation
Indices: 23084341--23084388 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
23084331 TAATCATATA
*
23084341 AATAAAGTTTAT-TATAAGTTAT
1 AATAAAGCTTATGTATAAGTTAT
* *
23084363 AGTAAAGCTTATGTATAAATTA-
1 AATAAAGCTTATGTATAAGTTAT
23084385 AATA
1 AATA
23084389 TATGCATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (23 bp):
AATAAAGCTTATGTATAAGTTAT
Found at i:23084738 original size:2 final size:2
Alignment explanation
Indices: 23084726--23084774 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
23084716 TATAAATTAC
* *
23084726 AT AT AT GT AT AT A- AT AT AT AT AT AT AT AC A- AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23084765 AT AT AT AT AT
1 AT AT AT AT AT
23084775 TCATAACATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23084744 original size:13 final size:13
Alignment explanation
Indices: 23084726--23084773 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
23084716 TATAAATTAC
*
23084726 ATATATGTATATA
1 ATATATATATATA
23084739 ATATATATATAT-
1 ATATATATATATA
*
23084751 ATACA-AT-TAT-
1 ATATATATATATA
23084761 ATATATATATATA
1 ATATATATATATA
23084774 TTCATAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
10 7 0.24
11 4 0.14
12 7 0.24
13 11 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:23096025 original size:13 final size:14
Alignment explanation
Indices: 23095999--23096031 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
23095989 GAGAAAATAA
23095999 AAAAATCATAAAAC
1 AAAAATCATAAAAC
23096013 AAAAATCAT-AAAC
1 AAAAATCATAAAAC
23096026 AAAAAT
1 AAAAAT
23096032 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATCATAAAAC
Found at i:23096055 original size:13 final size:12
Alignment explanation
Indices: 23095997--23096059 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 12
23095987 TAGAGAAAAT
*
23095997 AAAAAAATCATAA
1 AAAAAAATAAT-A
*
23096010 AACAAAAATCATA
1 AA-AAAAATAATA
23096023 AACAAAAATGAATTA
1 AA-AAAAAT-AA-TA
23096038 AAAAAAATAATA
1 AAAAAAATAATA
*
23096050 ATAAAAATAA
1 AAAAAAATAA
23096060 GAGAGAGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
12 11 0.24
13 14 0.31
14 16 0.36
15 4 0.09
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAAATAATA
Found at i:23097770 original size:22 final size:22
Alignment explanation
Indices: 23097730--23097772 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23097720 TACATGACAT
*
23097730 TAAATAAATAGGAAAATAAAAA
1 TAAATAAATAAGAAAATAAAAA
* *
23097752 TAAATAAATAATAATATAAAA
1 TAAATAAATAAGAAAATAAAA
23097773 TCTAAGACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
TAAATAAATAAGAAAATAAAAA
Found at i:23097912 original size:27 final size:27
Alignment explanation
Indices: 23097882--23097962 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
23097872 TGTAAAGTAT
* *
23097882 AAAAAATATTAATTAGAAATAAAAT-AG
1 AAAAAATA-TAATTAAAAATAAAATAAA
* *
23097909 AAAATATGATAATAAAAAATAAAATAAA
1 AAAAAAT-ATAATTAAAAATAAAATAAA
23097937 ATAAAAATAATAATTAAATAATAAAA
1 A-AAAAAT-ATAATTAAA-AATAAAA
23097963 AATGATAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 20 0.47
28 3 0.07
29 13 0.30
30 7 0.16
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (27 bp):
AAAAAATATAATTAAAAATAAAATAAA
Found at i:23097965 original size:32 final size:31
Alignment explanation
Indices: 23097898--23097984 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 31
23097888 TATTAATTAG
*
23097898 AAATAAAATAGAAAATATGATAA-TAAAAAATA
1 AAATAAAATA-AAAATA-GATAATTAAAAAAAA
23097930 AAATAAAATAAAAATA-ATAATTAAATAATAAA
1 AAATAAAATAAAAATAGATAATTAAA-AA-AAA
*
23097962 AAATGATAA-AAAAATAGATAATT
1 AAAT-AAAATAAAAATAGATAATT
23097985 GCATTAGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
29 4 0.08
30 4 0.08
31 8 0.17
32 23 0.48
33 9 0.19
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (31 bp):
AAATAAAATAAAAATAGATAATTAAAAAAAA
Found at i:23097970 original size:10 final size:10
Alignment explanation
Indices: 23097917--23097974 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
23097907 AGAAAATATG
23097917 ATAATAAAAA
1 ATAATAAAAA
*
23097927 AT-A-AAATA
1 ATAATAAAAA
23097935 A-AAT-AAAA
1 ATAATAAAAA
*
23097943 ATAATAATTAA
1 ATAATAA-AAA
23097954 ATAATAAAAA
1 ATAATAAAAA
*
23097964 ATGATAAAAA
1 ATAATAAAAA
23097974 A
1 A
23097975 ATAGATAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
8 10 0.26
9 4 0.11
10 15 0.39
11 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
ATAATAAAAA
Found at i:23097976 original size:21 final size:21
Alignment explanation
Indices: 23097917--23097982 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
23097907 AGAAAATATG
*
23097917 ATAATAAAA-AATAAAATAA-A
1 ATAA-AAAATAATAAAAAAATA
**
23097937 AT-AAAAATAATAATTAAATA
1 ATAAAAAATAATAAAAAAATA
*
23097957 ATAAAAAATGATAAAAAAATA
1 ATAAAAAATAATAAAAAAATA
23097978 GATAA
1 -ATAA
23097983 TTGCATTAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.11
19 8 0.22
20 5 0.14
21 15 0.42
22 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
ATAAAAAATAATAAAAAAATA
Found at i:23098423 original size:24 final size:23
Alignment explanation
Indices: 23098390--23098441 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
23098380 TGTCCGACAT
* *
23098390 TTTTATCTCACGACATGCATTTCA
1 TTTTACCTCAC-ACATGCATTCCA
**
23098414 TTTTACCTCACATTTGCATTCCA
1 TTTTACCTCACACATGCATTCCA
23098437 TTTTA
1 TTTTA
23098442 GGTTAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.23, C:0.25, G:0.06, T:0.46
Consensus pattern (23 bp):
TTTTACCTCACACATGCATTCCA
Found at i:23106519 original size:19 final size:20
Alignment explanation
Indices: 23106495--23106549 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
23106485 ATCCATCAAC
23106495 ATGAAGATTGAAAAAATG-A
1 ATGAAGATTGAAAAAATGAA
*
23106514 ATGAAGA-AGAAAAAATGAAA
1 ATGAAGATTGAAAAAATG-AA
*
23106534 ATGAAAATTGAAAAAA
1 ATGAAGATTGAAAAAA
23106550 AAAAAGAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 7 0.23
21 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.16
Consensus pattern (20 bp):
ATGAAGATTGAAAAAATGAA
Found at i:23106553 original size:19 final size:19
Alignment explanation
Indices: 23106495--23106558 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
23106485 ATCCATCAAC
* **
23106495 ATGAAGATTGAAAAAATGA
1 ATGAAAATTGAAAAAAAAA
23106514 ATGAAGAA--GAAAAAATGAAA
1 ATGAA-AATTGAAAAAA--AAA
23106534 ATGAAAATTGAAAAAAAAA
1 ATGAAAATTGAAAAAAAAA
*
23106553 AAGAAA
1 ATGAAA
23106559 GGAAGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 7 0.19
19 15 0.42
20 7 0.19
21 7 0.19
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (19 bp):
ATGAAAATTGAAAAAAAAA
Found at i:23108353 original size:37 final size:37
Alignment explanation
Indices: 23108260--23108563 Score: 283
Period size: 38 Copynumber: 8.1 Consensus size: 37
23108250 TAGTTTTAAG
* **
23108260 ATTTTTAAAGT-TATGTTGCCTCAGCTTTGAGGAGCCAC
1 ATTTTTAAAGTCT-CGTTGCCTCAGCTTTGAGGAG-TTC
* *
23108298 ATATTTAAAGTCAT-GTTGCCTCAGCTTTGAGGAGTAC
1 ATTTTTAAAGTC-TCGTTGCCTCAGCTTTGAGGAGTTC
* * *
23108335 ATTTTTAAAGTCACGTTGCCTCAACTTTGAAGAGTTC
1 ATTTTTAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
* *
23108372 ATTTTTAAAAGTCTCGTGGCCTCAGCTTTGAGGAGTTT
1 ATTTTT-AAAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
* * *
23108410 ATTTTTAAAAATCTCGTTGCCTCGGTTTTGAGGAGTTC
1 ATTTTT-AAAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
* * * * **
23108448 GTTTTTAGAAGTTTTGTTACCTCAATTTTGAGGAGTTC
1 ATTTTTA-AAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
* *
23108486 A-TTTTAGAAGTTTCG-TGCCTCAGCTTTGAGGAGATC
1 ATTTTTA-AAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
* * * *
23108522 ATTTTTAAAGTTTTGTTGCTTCAGCTTTGAGAAGTCTC
1 ATTTTTAAAGTCTCGTTGCCTCAGCTTTGAGGAGT-TC
23108560 ATTT
1 ATTT
23108564 AAAACAAAAC
Statistics
Matches: 224, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
36 25 0.11
37 74 0.33
38 124 0.55
40 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (37 bp):
ATTTTTAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
Found at i:23108471 original size:76 final size:75
Alignment explanation
Indices: 23108274--23108563 Score: 298
Period size: 75 Copynumber: 3.9 Consensus size: 75
23108264 TTAAAGTTAT
** * ** *
23108274 GTTGCCTCAGCTTTGAGGAGCCACATATTTAAAGTCATGTTGCCTCAGCTTTGAGGAGTACATTT
1 GTTGCCTCAGCTTTGAGGAG-TTCATTTTTAAAGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTT
*
23108339 TT-AAAGTCAC
65 TTAAAAGTCTC
* * * * * *
23108349 GTTGCCTCAACTTTGAAGAGTTCATTTTTAAAAGTCTCGTGGCCTCAGCTTTGAGGAGTTTATTT
1 GTTGCCTCAGCTTTGAGGAGTTCATTTTT-AAAGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTT
*
23108414 TTAAAAATCTC
65 TTAAAAGTCTC
* * * * **
23108425 GTTGCCTCGGTTTTGAGGAGTTCGTTTTTAGAAGTTTTGTTACCTCAATTTTGAGGAGTTCA-TT
1 GTTGCCTCAGCTTTGAGGAGTTCATTTTTA-AAGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTT
* *
23108489 TTAGAAGTTTC
65 TTAAAAGTCTC
* * *
23108500 G-TGCCTCAGCTTTGAGGAGATCATTTTTAAAGTTTTGTTGCTTCAGCTTTGAGAAGTCTCATTT
1 GTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTTTTGTTGCCTCAGCTTTGAGGAGT-TCATTT
23108564 AAAACAAAAC
Statistics
Matches: 174, Mismatches: 36, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
73 23 0.13
74 33 0.19
75 64 0.37
76 54 0.31
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (75 bp):
GTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTTT
TAAAAGTCTC
Found at i:23108810 original size:14 final size:14
Alignment explanation
Indices: 23108787--23108825 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
23108777 AAGAGAGAAA
23108787 ATAAAA-AAAAATC
1 ATAAAACAAAAATC
23108800 ATAAAACAAAAATC
1 ATAAAACAAAAATC
23108814 AT-AAACAAAAAT
1 ATAAAACAAAAAT
23108826 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (14 bp):
ATAAAACAAAAATC
Found at i:23110523 original size:19 final size:18
Alignment explanation
Indices: 23110499--23110542 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
23110489 ACATGACATT
23110499 AAATAAATAGGAA-AATAAA
1 AAATAAATA--AATAATAAA
23110518 AAATAAATAAATAATAAA
1 AAATAAATAAATAATAAA
23110536 AAA-AAAT
1 AAATAAAT
23110543 CTACGACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAATAAATAATAAA
Found at i:23110536 original size:23 final size:22
Alignment explanation
Indices: 23110498--23110541 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23110488 TACATGACAT
*
23110498 TAAATAAATAGGAAAATAAAAAA
1 TAAATAAATAAGAAAA-AAAAAA
*
23110521 TAAATAAATAATAAAAAAAAA
1 TAAATAAATAAGAAAAAAAAA
23110542 TCTACGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (22 bp):
TAAATAAATAAGAAAAAAAAAA
Found at i:23110677 original size:25 final size:26
Alignment explanation
Indices: 23110649--23110706 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
23110639 AATGCAAAGT
* *
23110649 ATAAAAAATAT-TAATTAGAAATAAA
1 ATAAAAAATATATAATAAAAAATAAA
23110674 ATAAAAAATATGATAATAAAAAATAAA
1 ATAAAAAATAT-ATAATAAAAAATAAA
23110701 ATAAAA
1 ATAAAA
23110707 TAAAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.38
27 18 0.62
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (26 bp):
ATAAAAAATATATAATAAAAAATAAA
Found at i:23110704 original size:15 final size:15
Alignment explanation
Indices: 23110673--23110715 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
23110663 TTAGAAATAA
**
23110673 AATAAAAAATATGAT
1 AATAAAAAATAAAAT
23110688 AATAAAAAATAAAAT
1 AATAAAAAATAAAAT
*
23110703 AAAATAAAAATAA
1 AATA-AAAAATAA
23110716 TAATTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAAATAAAAT
Found at i:23110709 original size:20 final size:20
Alignment explanation
Indices: 23110668--23110734 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
23110658 ATTAATTAGA
**
23110668 AATAAAATAA-AAAATATGAT
1 AATAAAA-AATAAAATAAAAT
23110688 AATAAAAAATAAAATAAAAT
1 AATAAAAAATAAAATAAAAT
* *
23110708 AA-AAATAAT--AATTAAAT
1 AATAAAAAATAAAATAAAAT
23110725 AATAAAAAAT
1 AATAAAAAAT
23110735 GACCAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 9 0.22
18 6 0.15
19 8 0.20
20 17 0.43
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (20 bp):
AATAAAAAATAAAATAAAAT
Found at i:23110724 original size:27 final size:27
Alignment explanation
Indices: 23110652--23110734 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
23110642 GCAAAGTATA
*
23110652 AAAAATATTAATTAGAAATAAAATAAAA-
1 AAAAATAATAATT--AAATAAAATAAAAT
* *
23110680 AATATGATAATAA-AAAATAAAATAAAAT
1 AA-A-AATAATAATTAAATAAAATAAAAT
23110708 AAAAATAATAATTAAATAATAA-AAAAT
1 AAAAATAATAATTAAATAA-AATAAAAT
23110735 GACCAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
26 7 0.16
27 25 0.56
28 6 0.13
29 1 0.02
30 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAATAATAATTAAATAAAATAAAAT
Found at i:23110728 original size:14 final size:15
Alignment explanation
Indices: 23110667--23110734 Score: 53
Period size: 14 Copynumber: 5.0 Consensus size: 15
23110657 TATTAATTAG
23110667 AAATAA-AATAAAA-
1 AAATAATAATAAAAT
*
23110680 AATATGATAAT-AAA-
1 AA-ATAATAATAAAAT
23110694 AAATAA-AATAAAAT
1 AAATAATAATAAAAT
*
23110708 AAA-AATAAT-AATT
1 AAATAATAATAAAAT
23110721 AAATAATAA-AAAAT
1 AAATAATAATAAAAT
23110735 GACCAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
12 3 0.07
13 16 0.36
14 22 0.50
15 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:23110734 original size:32 final size:31
Alignment explanation
Indices: 23110667--23110752 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 31
23110657 TATTAATTAG
*
23110667 AAATAAAATAAAAAATATGATAATAAAAAATA
1 AAATAAAATAAAAAATA-GATAATAAAAAAAA
23110699 AAATAAAAT-AAAAATA-ATAATTAAATAATAAA
1 AAATAAAATAAAAAATAGATAA-TAAA-AA-AAA
* **
23110731 AAAT-GACCAAAAAATAGATAAT
1 AAATAAAATAAAAAATAGATAAT
23110753 TGCATTAGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
29 4 0.09
30 4 0.09
31 10 0.22
32 23 0.51
33 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (31 bp):
AAATAAAATAAAAAATAGATAATAAAAAAAA
Found at i:23119697 original size:18 final size:18
Alignment explanation
Indices: 23119674--23119716 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
23119664 GCACTATGTG
23119674 CTTTCTCCATAAGGTCAT
1 CTTTCTCCATAAGGTCAT
23119692 CTTTCTCCATAAGGTCAT
1 CTTTCTCCATAAGGTCAT
23119710 CTTTCTC
1 CTTTCTC
23119717 ACCATCAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (18 bp):
CTTTCTCCATAAGGTCAT
Found at i:23140914 original size:30 final size:30
Alignment explanation
Indices: 23140876--23140945 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
23140866 TTGTTATTAC
* *
23140876 AAAT-TAATTTCAGAACTAAAT-AAATATGA
1 AAATCTAATTTCAAAAAT-AATCAAATATGA
*
23140905 AAATCTAATTTTAAAAATAATCAAATATGA
1 AAATCTAATTTCAAAAATAATCAAATATGA
*
23140935 AAAGCTAATTT
1 AAATCTAATTT
23140946 TGAATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATCTAATTTCAAAAATAATCAAATATGA
Found at i:23140946 original size:30 final size:30
Alignment explanation
Indices: 23140897--23140955 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
23140887 AGAACTAAAT
*
23140897 AAATATGAAAATCTAATTTTAAAAATAATC
1 AAATATGAAAAGCTAATTTTAAAAATAATC
* *
23140927 AAATATGAAAAGCTAATTTTGAATATAAT
1 AAATATGAAAAGCTAATTTTAAAAATAAT
23140956 TAAGTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (30 bp):
AAATATGAAAAGCTAATTTTAAAAATAATC
Found at i:23141676 original size:55 final size:55
Alignment explanation
Indices: 23141569--23141677 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
23141559 AACTGTTATT
* * * *
23141569 TTAGCGTGTCACGGCCGTTATTGGCGTGTTGTGGGTTAACTAGTTATTTGGGTTG
1 TTAGCGTGTCACAGCCGTTATTGGCGTGTGGTGGGTTAACTAATTATATGGGTTG
* * * *
23141624 TTAGTGTGTCACAGCTGTTCTTGGGGTGTGGTGGGTTAACTGAATT-TATGGGTT
1 TTAGCGTGTCACAGCCGTTATTGGCGTGTGGTGGGTTAACT-AATTATATGGGTT
23141678 TTTGGCGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
55 42 0.93
56 3 0.07
ACGTcount: A:0.14, C:0.11, G:0.35, T:0.40
Consensus pattern (55 bp):
TTAGCGTGTCACAGCCGTTATTGGCGTGTGGTGGGTTAACTAATTATATGGGTTG
Found at i:23141807 original size:23 final size:23
Alignment explanation
Indices: 23141781--23141841 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
23141771 TTACAATGAT
*
23141781 TGGCGTGTCACGACAGTGATGCA
1 TGGCGTGTCACGACAGTGATACA
* * *
23141804 TGGCGTGTAACGATATTGATACA
1 TGGCGTGTCACGACAGTGATACA
*
23141827 TGGTGTGTCACGACA
1 TGGCGTGTCACGACA
23141842 TTTGACTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (23 bp):
TGGCGTGTCACGACAGTGATACA
Done.