Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 651 of 770
Found at i:204538120 original size:27 final size:28
Alignment explanation
Indices: 204538064--204538127 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
204538054 ATTTACTAGA
*
204538064 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
204538092 ATACCCCTATGTATGC-AAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
204538119 ATACCCCTA
1 ATACCCCTA
204538128 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:204538333 original size:29 final size:28
Alignment explanation
Indices: 204538233--204538322 Score: 130
Period size: 27 Copynumber: 3.2 Consensus size: 28
204538223 AGGAAGCGTC
204538233 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
204538261 CTGGTGGCCCTGCCAC-AATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
204538288 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
204538317 CTGGTG
1 CTGGTG
204538323 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 26 0.46
28 23 0.41
29 7 0.12
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:204538341 original size:55 final size:56
Alignment explanation
Indices: 204538233--204538347 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
204538223 AGGAAGCGTC
* *
204538233 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
* * *
204538288 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGTAT
204538344 CTGG
1 CTGG
204538348 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 32 0.62
56 19 0.37
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
Found at i:204539416 original size:11 final size:10
Alignment explanation
Indices: 204539388--204539421 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
204539378 AGCCTGTAAG
204539388 TATTCTGAAT
1 TATTCTGAAT
*
204539398 TTTTCTGAAT
1 TATTCTGAAT
204539408 ATATTCTGAAT
1 -TATTCTGAAT
204539419 TAT
1 TAT
204539422 CTGTGTACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:204545925 original size:28 final size:28
Alignment explanation
Indices: 204545893--204545957 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
204545883 ATTTACTAGA
*
204545893 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
204545921 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
204545949 ATACCCCTA
1 ATACCCCTA
204545958 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:204546104 original size:28 final size:28
Alignment explanation
Indices: 204546063--204546145 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
204546053 AGGAAGCGTC
204546063 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
204546091 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
204546119 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCACAAATTATCTGT
204546146 ATCGGGTGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:204546629 original size:18 final size:18
Alignment explanation
Indices: 204546606--204546649 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
204546596 TAATAAGGCC
* *
204546606 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
204546624 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
204546642 TTTTAATT
1 TTTTAATT
204546650 TACTGTGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:204549449 original size:22 final size:24
Alignment explanation
Indices: 204549408--204549472 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 24
204549398 AAAAATATAT
204549408 AATATATAATATATATAATTCTAA
1 AATATATAATATATATAATTCTAA
* *
204549432 AATATATTAT-TATA-AATTTTAA
1 AATATATAATATATATAATTCTAA
*
204549454 AA-ATTAAAATAATATATAA
1 AATA-TATAAT-ATATATAA
204549473 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 4 0.12
24 13 0.39
25 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATATAATATATATAATTCTAA
Found at i:204549476 original size:18 final size:18
Alignment explanation
Indices: 204549453--204549491 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
204549443 ATAAATTTTA
*
204549453 AAAATTAAAATAATATAT
1 AAAATTAAAAAAATATAT
*
204549471 AAAATTAAAAAAATATTT
1 AAAATTAAAAAAATATAT
204549489 AAA
1 AAA
204549492 TTTTACTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTAAAAAAATATAT
Found at i:204551194 original size:40 final size:40
Alignment explanation
Indices: 204551150--204551244 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
204551140 GTATTTTCGA
* * *
204551150 ATCAATGAAAAGGTTGAA-ATG-ATGTTTTTCCGAAAAGGAT
1 ATCAATGAAAAGGTTGAAGA-GAAT-ATTATCCAAAAAGGAT
204551190 ATCAAATGAAAAGGTTGAAGAGAATATTATCCAAAAAGGAT
1 ATC-AATGAAAAGGTTGAAGAGAATATTATCCAAAAAGGAT
*
204551231 ATAAATGAAAAGGT
1 ATCAATGAAAAGGT
204551245 CAAAAATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 14 0.29
41 31 0.65
42 3 0.06
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.25
Consensus pattern (40 bp):
ATCAATGAAAAGGTTGAAGAGAATATTATCCAAAAAGGAT
Found at i:204553897 original size:24 final size:24
Alignment explanation
Indices: 204553865--204553914 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
204553855 GAATCATATG
*
204553865 ATCAAACACTACCACATACATTCC
1 ATCAAACACTACCACATACATGCC
204553889 ATCAAACACTACCACATACATGCC
1 ATCAAACACTACCACATACATGCC
204553913 AT
1 AT
204553915 ATATTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (24 bp):
ATCAAACACTACCACATACATGCC
Found at i:204555056 original size:43 final size:43
Alignment explanation
Indices: 204554886--204555038 Score: 183
Period size: 43 Copynumber: 3.6 Consensus size: 43
204554876 ATATCATACA
* *
204554886 ATGCCAACGTCCCAGAC-GTGGTCTTACATGCCATCACATATCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACG-AATCACATATCG
* * *
204554929 ATGCC-ACTATCCGAGACAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAGTGGTCTTACACGAATCACATATCG
*
204554970 ATGCCAATGTCCCAGACA-TGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACG-AATCACATATCG
204555013 ATGCCAACGTCCCAGA-AGTGGTCTTA
1 ATGCCAACGTCCCAGACAGTGGTCTTA
204555039 TATGAGAACA
Statistics
Matches: 93, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
41 26 0.28
42 19 0.20
43 47 0.51
44 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGTGGTCTTACACGAATCACATATCG
Found at i:204557704 original size:28 final size:28
Alignment explanation
Indices: 204557639--204557739 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
204557629 ATAGTGAATC
*
204557639 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
204557668 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
204557696 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
204557726 CGCACACTTAGTGC
1 CGCACACTTAGTGC
204557740 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:204557788 original size:29 final size:29
Alignment explanation
Indices: 204557756--204557828 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
204557746 CTTCGAGCTC
*
204557756 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
204557785 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
204557814 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
204557829 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:204562387 original size:18 final size:18
Alignment explanation
Indices: 204562364--204562400 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
204562354 AAAGTAAGCT
204562364 TCACAACCCTTTCTCACA
1 TCACAACCCTTTCTCACA
204562382 TCACAACCCTTTCTCACA
1 TCACAACCCTTTCTCACA
204562400 T
1 T
204562401 ACTTCTGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (18 bp):
TCACAACCCTTTCTCACA
Found at i:204564560 original size:49 final size:50
Alignment explanation
Indices: 204564445--204564620 Score: 159
Period size: 49 Copynumber: 3.6 Consensus size: 50
204564435 TAATGCCAAT
* * * * *
204564445 GCCACGTCCCAGACATGGTCTTGCACTGGCTCATC-C--ATCA-AGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAAATCAGAGGCGAC
*
204564492 GCCGTGTCCCAGACATGGTCTTACACTGACTATCA-AAAT-AGAGGCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCAGAGGC-GAC
* ** * * * *
204564541 GCCATGTCCCAGACATGGTCTTACACTTG-CTCTCACATCTCCGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-TGACTATCACAAATCAGAGGCGAC
204564591 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
204564621 ACATCTCGTA
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 3 0.03
47 28 0.26
48 5 0.05
49 34 0.32
50 33 0.31
51 3 0.03
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCAGAGGCGAC
Found at i:204564602 original size:99 final size:96
Alignment explanation
Indices: 204564445--204564620 Score: 255
Period size: 99 Copynumber: 1.8 Consensus size: 96
204564435 TAATGCCAAT
* *
204564445 GCCACGTCCCAGACATGGTCTTGCACTGGCTCATCCATCAAGTCGATGCCGTGTCCCAGACATGG
1 GCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
204564510 TCTTACACTGACTATCAAAATAGAGGCTGAC
66 TCTTACACTGACTATCAAAATAGAGGCTGAC
* * **
204564541 GCCATGTCCCAGACATGGTCTTACACTTGCTC-TCACATCTCCGTGTCGATGCCATGTCCCAGAC
1 GCCACGTCCCAGACATGGTCTTACACTGGCTCATC-CA--T-CAAGTCGATGCCATGTCCCAGAC
204564605 ATGGTCTTACACTGAC
62 ATGGTCTTACACTGAC
204564621 ACATCTCGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 2 0.03
96 31 0.44
98 1 0.01
99 36 0.51
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (96 bp):
GCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACTATCAAAATAGAGGCTGAC
Found at i:204564671 original size:46 final size:47
Alignment explanation
Indices: 204564450--204564707 Score: 196
Period size: 46 Copynumber: 5.5 Consensus size: 47
204564440 CCAATGCCAC
* * *
204564450 GTCCCAGACATGGTCTTGCACTGGC-T-CATCCATC-AAGTCGATGCCGT
1 GTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGTAGTCGATG-CAT
* ** * * *
204564497 GTCCCAGACATGGTCTTACACTGAC-TATCAAAATAG-AGGCTGACGCCAT
1 GTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGTAGTC-GATG-CAT
*
204564546 GTCCCAGACATGGTCTTACACTTGCTCTCACATCTCCGT-GTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGTAGTCGATG-CAT
*
204564596 GTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGTCGATGCAT
1 GTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGTCGATGCAT
* * *
204564641 GTTCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCAATGCAT
1 GTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GTCGATGCAT
*
204564687 GTCCCAAACAT-GTCTTACACT
1 GTCCCAGACATGGTCTTACACT
204564708 AGCTCTCGTC
Statistics
Matches: 174, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
44 12 0.07
45 17 0.10
46 48 0.28
47 24 0.14
48 4 0.02
49 30 0.17
50 33 0.19
51 5 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGTCGATGCAT
Found at i:204564729 original size:46 final size:46
Alignment explanation
Indices: 204564543--204564804 Score: 196
Period size: 46 Copynumber: 5.6 Consensus size: 46
204564533 AGGCTGACGC
* * *
204564543 CATGTCCCAGACATGGTCTTACACTTGCTCTCACATCTCCGTGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT-CATGTCAATG
* * * *
204564592 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAT-GTCAATG
* * * *
204564638 CATGTTCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTC-ATGTCAATG
* *
204564684 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGTCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-ATGTCAATG
* * * * * *
204564730 CAATGTCTCATACATGGTCTTATACTAGCTCTCATAAT-ATGGCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTCAT-GTCAATG
*
204564778 CATGTCTCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
204564805 GCACAAATGA
Statistics
Matches: 177, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 73 0.41
47 26 0.15
48 24 0.14
49 2 0.01
50 25 0.14
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCATGTCAATG
Found at i:204567499 original size:2 final size:2
Alignment explanation
Indices: 204567492--204567524 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
204567482 AAGATTAATC
204567492 AT AT AT AT A- AT AT AT AT A- AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
204567525 ATACAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:204567506 original size:9 final size:9
Alignment explanation
Indices: 204567492--204567524 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
204567482 AAGATTAATC
204567492 ATATATATA
1 ATATATATA
204567501 ATATATATA
1 ATATATATA
204567510 ATATATAT-
1 ATATATATA
204567518 ATATATA
1 ATATATA
204567525 ATACAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATATATA
Found at i:204567983 original size:24 final size:24
Alignment explanation
Indices: 204567956--204568003 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
204567946 GAATCATGTG
204567956 ATCAAACACTACCACATACATGCC
1 ATCAAACACTACCACATACATGCC
204567980 ATCAAACACTACCACATACATGCC
1 ATCAAACACTACCACATACATGCC
204568004 TTATATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.38, G:0.04, T:0.17
Consensus pattern (24 bp):
ATCAAACACTACCACATACATGCC
Found at i:204574049 original size:78 final size:78
Alignment explanation
Indices: 204573918--204574069 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 78
204573908 TCTGAGAATC
* * * *
204573918 CTCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGCGATCAAGGGATCAGGG
1 CTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATCACGG
204573983 TTTAATGGTCGAA
66 TTTAATGGTCGAA
* * * *
204573996 CTCCATGGTGATCATTATCAACATGATCACCGACTCTCCCAGTTGGTGAGATCAAGGGATCACGG
1 CTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATCACGG
204574061 TTTAATGGT
66 TTTAATGGT
204574070 AGAATATGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (78 bp):
CTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATCACGG
TTTAATGGTCGAA
Found at i:204575303 original size:178 final size:178
Alignment explanation
Indices: 204575004--204575360 Score: 705
Period size: 178 Copynumber: 2.0 Consensus size: 178
204574994 ATGGGCCAAA
204575004 TACAACACCTTCTAAAGATGAAAACCACAATACCCACAGAAATAAAAGAAAATAAGCTTATCTGA
1 TACAACACCTTCTAAAGATGAAAACCACAATACCCACAGAAATAAAAGAAAATAAGCTTATCTGA
204575069 AACTAAAAAATACGTGAAAAAGAAAACATAGTTGAAGTGAAAATCATACCTGAAATCACTATCCG
66 AACTAAAAAATACGTGAAAAAGAAAACATAGTTGAAGTGAAAATCATACCTGAAATCACTATCCG
204575134 ATGTAGAAGGAGATTTCAATATCACAGAAAACCCGAAAAGGCAGAGAG
131 ATGTAGAAGGAGATTTCAATATCACAGAAAACCCGAAAAGGCAGAGAG
*
204575182 TACAACACCTTCTAAAGATGAAAACCACAATACCCACAGAAATGAAAGAAAATAAGCTTATCTGA
1 TACAACACCTTCTAAAGATGAAAACCACAATACCCACAGAAATAAAAGAAAATAAGCTTATCTGA
204575247 AACTAAAAAATACGTGAAAAAGAAAACATAGTTGAAGTGAAAATCATACCTGAAATCACTATCCG
66 AACTAAAAAATACGTGAAAAAGAAAACATAGTTGAAGTGAAAATCATACCTGAAATCACTATCCG
204575312 ATGTAGAAGGAGATTTCAATATCACAGAAAACCCGAAAAGGCAGAGAG
131 ATGTAGAAGGAGATTTCAATATCACAGAAAACCCGAAAAGGCAGAGAG
204575360 T
1 T
204575361 TCCTCCCTCT
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.18
Consensus pattern (178 bp):
TACAACACCTTCTAAAGATGAAAACCACAATACCCACAGAAATAAAAGAAAATAAGCTTATCTGA
AACTAAAAAATACGTGAAAAAGAAAACATAGTTGAAGTGAAAATCATACCTGAAATCACTATCCG
ATGTAGAAGGAGATTTCAATATCACAGAAAACCCGAAAAGGCAGAGAG
Found at i:204585771 original size:90 final size:90
Alignment explanation
Indices: 204585658--204585839 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 90
204585648 TAAGGCCCTA
204585658 GATCAGATCAATATCAACAATCTAAAAGATCAGAGAAAGCCAGAATTCATTTATTAGCTTCCAGC
1 GATCAGATCAATATCAACAATCTAAAAGATCAGAGAAAGCCAGAATTCATTTATTAGCTTCCAGC
*
204585723 AAAGACCAAAAGAAAGAATCTAAAT
66 AAAGACCAAAAGAAAGAACCTAAAT
204585748 GATCAGATCAATATCAACAATCTAAAAGATCAGAGAAAGCCAGAATTCATTTATTAGCTTCCAGC
1 GATCAGATCAATATCAACAATCTAAAAGATCAGAGAAAGCCAGAATTCATTTATTAGCTTCCAGC
204585813 AAAGACCAAAAGAAAGAACCTAAAT
66 AAAGACCAAAAGAAAGAACCTAAAT
204585838 GA
1 GA
204585840 AATGGTCAGA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (90 bp):
GATCAGATCAATATCAACAATCTAAAAGATCAGAGAAAGCCAGAATTCATTTATTAGCTTCCAGC
AAAGACCAAAAGAAAGAACCTAAAT
Found at i:204590154 original size:15 final size:15
Alignment explanation
Indices: 204590134--204590163 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
204590124 GGATAGGGAA
*
204590134 AAAAAAATTAATTAT
1 AAAAAAAGTAATTAT
204590149 AAAAAAAGTAATTAT
1 AAAAAAAGTAATTAT
204590164 GAAATTAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAAAAAAGTAATTAT
Found at i:204597605 original size:19 final size:18
Alignment explanation
Indices: 204597569--204597607 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
204597559 TTAGAATATT
* *
204597569 AAATATTATAATTTTTTA
1 AAATATTATAACTATTTA
204597587 AAATATTAATAACTATTTA
1 AAATATT-ATAACTATTTA
204597606 AA
1 AA
204597608 CACTTAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATTATAACTATTTA
Found at i:204604366 original size:40 final size:40
Alignment explanation
Indices: 204604321--204604487 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
204604311 CGGAATATAA
204604321 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * * *
204604361 CCGGATCGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
204604401 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
204604441 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
204604480 CCGGATAT
1 CCGGATAT
204604488 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204611458 original size:40 final size:40
Alignment explanation
Indices: 204611413--204611579 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
204611403 CGGAATATAA
204611413 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
204611453 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
204611493 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
204611533 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
204611572 CCGGATAT
1 CCGGATAT
204611580 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204613928 original size:60 final size:60
Alignment explanation
Indices: 204613862--204613984 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
204613852 AGTAGTAAAC
204613862 TTTGAAAGTAGGATAGGGAAATGTGTGATGACTAATTGAAGCATGCATGCAAAACAATGG
1 TTTGAAAGTAGGATAGGGAAATGTGTGATGACTAATTGAAGCATGCATGCAAAACAATGG
204613922 TTTGAAAGTAGGATAGGGAAATGTGTGATGACTAATTGAAGCATGCATGCAAAACAATGG
1 TTTGAAAGTAGGATAGGGAAATGTGTGATGACTAATTGAAGCATGCATGCAAAACAATGG
204613982 TTT
1 TTT
204613985 TGCATGTCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (60 bp):
TTTGAAAGTAGGATAGGGAAATGTGTGATGACTAATTGAAGCATGCATGCAAAACAATGG
Found at i:204615543 original size:40 final size:40
Alignment explanation
Indices: 204615498--204615705 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
204615488 TGAATGATAC
* ** *
204615498 CCGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTATAT
204615538 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
204615578 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCT-AGTTGTTATAT
* * *** *
204615618 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *
204615658 CCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTTGTTATAT
204615698 CC-GGCTAA
1 CCGGGCTAA
204615706 ATTCTGAAGA
Statistics
Matches: 145, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 6 0.04
40 134 0.92
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
Found at i:204616868 original size:31 final size:31
Alignment explanation
Indices: 204616827--204616890 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
204616817 CCTTTTCATA
* *
204616827 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
204616858 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
204616889 TT
1 TT
204616891 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:204617126 original size:25 final size:23
Alignment explanation
Indices: 204617083--204617276 Score: 228
Period size: 25 Copynumber: 8.0 Consensus size: 23
204617073 TGCTTTATCA
*
204617083 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
204617107 TAGTAACTGGGGCAAAAGCCCTTTT
1 TA-TAACTGGGGCATAAGCCC-TTT
204617132 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
204617155 ATCACAACTGGGGCATAAGCCCTTCAT
1 -T-ATAACTGGGGCATAAGCCCTT--T
*
204617182 CATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
204617205 ATCATAACTAGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
204617230 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
204617253 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
204617276 T
1 T
204617277 GCACTTCTTC
Statistics
Matches: 150, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
23 48 0.32
24 24 0.16
25 77 0.51
27 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:204617350 original size:20 final size:20
Alignment explanation
Indices: 204617322--204617365 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
204617312 GCATTTATGA
204617322 ACATCTCATGTGCATATCAT
1 ACATCTCATGTGCATATCAT
*
204617342 ACATGTCATGTGCATATCAT
1 ACATCTCATGTGCATATCAT
204617362 ACAT
1 ACAT
204617366 ACCATGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATCTCATGTGCATATCAT
Found at i:204617371 original size:20 final size:20
Alignment explanation
Indices: 204617328--204617372 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
204617318 ATGAACATCT
**
204617328 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
204617348 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
204617368 CATGT
1 CATGT
204617373 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:204617437 original size:25 final size:25
Alignment explanation
Indices: 204617409--204617456 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
204617399 ATGTATAAAC
* * *
204617409 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
204617434 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
204617457 AATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:204618642 original size:27 final size:26
Alignment explanation
Indices: 204618612--204618688 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
204618602 AGGCATATTC
204618612 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
204618639 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
*
204618666 GTC-TTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
204618689 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
25 4 0.09
26 12 0.28
27 24 0.56
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:204618766 original size:26 final size:26
Alignment explanation
Indices: 204618729--204618825 Score: 88
Period size: 26 Copynumber: 3.6 Consensus size: 26
204618719 GTAAATCTAC
204618729 AAACCAAGGGTATTTC-AGTAATTTGT
1 AAACCAAGGGTATTTCTA-TAATTTGT
* *
204618755 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTGT
* *
204618781 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCTATAA-TTTGT
* *
204618811 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
204618826 TGGTAATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 22 0.37
27 12 0.20
28 6 0.10
29 15 0.25
30 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTGT
Found at i:204618831 original size:27 final size:27
Alignment explanation
Indices: 204618816--204618943 Score: 177
Period size: 27 Copynumber: 4.7 Consensus size: 27
204618806 TTTGTAAATC
204618816 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
204618842 TGAGGGTATTTCGGTAATTTCACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
204618870 AAGGGTATTTTGATAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
204618897 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
204618924 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
204618944 GTAAATCGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:204618955 original size:27 final size:27
Alignment explanation
Indices: 204618706--204618957 Score: 151
Period size: 27 Copynumber: 9.3 Consensus size: 27
204618696 TTTCATCCTA
* * * * *
204618706 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
204618733 CAAGGGTATTTCAGTAATTTGT--AAAC
1 CAAGGGTATTTTAGTAATTT-TACAAAT
* *
204618759 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
204618788 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
* *
204618815 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
** ** *
204618842 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
204618868 CTAAGGGTATTTT-GATAATTTTACAAA-
1 C-AAGGGTATTTTAG-TAATTTTACAAAT
* *
204618895 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTACAAAT
**
204618922 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTACAAAT
*
204618950 CGAGGGTA
1 CAAGGGTA
204618958 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
26 20 0.11
27 135 0.74
28 12 0.07
29 15 0.08
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:204618965 original size:27 final size:27
Alignment explanation
Indices: 204618935--204619146 Score: 234
Period size: 27 Copynumber: 7.9 Consensus size: 27
204618925 AGGGTATTTT
*
204618935 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
204618962 AGTAATTCTGTAACTCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
204618989 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
204619016 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
204619043 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
204619070 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
204619097 GGTAATTATGTAAATC-AGGGGTAAAGC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
*
204619124 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
204619147 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.02
27 157 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:204618984 original size:81 final size:81
Alignment explanation
Indices: 204618909--204619136 Score: 205
Period size: 81 Copynumber: 2.8 Consensus size: 81
204618899 GGGTATTTTG
* *** *
204618909 GTAATTTTACAAACTAAGGGT-ATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GTAATTCTACAAACTAAGGGTAAAACT-GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
204618973 AACTCAAGGGTAAAATA
65 AACTCAAGGGTAAAATA
* * * *
204618990 GTAATTCTATAAATTGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACTAAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* * *
204619055 AGTCGAGGGTAAAA-C
66 ACTCAAGGGTAAAATA
* ** * * * *
204619070 GATAATTATGTAAA-TCAGGGGTAAAACGGTAATTATGTAAATC-AGGGGTAAAGC-GATAATTC
1 G-TAATTCTACAAACT-AAGGGTAAAACTGTAATTCTGTAAATCGA-GGGTAAAACAG-TAATTC
204619132 TGTAA
62 TGTAA
204619137 ATCGGGGGTA
Statistics
Matches: 123, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.03
81 117 0.95
82 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTCTACAAACTAAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
ACTCAAGGGTAAAATA
Found at i:204619173 original size:27 final size:27
Alignment explanation
Indices: 204619152--204619241 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
204619142 GGGTACTTTG
*
204619152 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
204619179 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
204619206 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
204619233 GTAATTTTA
1 GTAATTTTA
204619242 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:204619193 original size:54 final size:54
Alignment explanation
Indices: 204619135--204619241 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
204619125 ATAATTCTGT
* * *
204619135 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
204619189 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
204619242 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:204619255 original size:27 final size:27
Alignment explanation
Indices: 204619152--204619256 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
204619142 GGGTACTTTG
* *
204619152 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
204619179 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
204619206 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
204619233 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
204619257 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:204620932 original size:40 final size:40
Alignment explanation
Indices: 204620887--204621053 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
204620877 CGGAATATAA
204620887 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
204620927 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
204620967 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
204621007 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
204621046 CCGGATAT
1 CCGGATAT
204621054 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204621037 original size:80 final size:79
Alignment explanation
Indices: 204620887--204621053 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
204620877 CGGAATATAA
* *
204620887 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
204620952 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
204620967 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
204621029 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
204621046 CCGGATAT
1 CCGGATAT
204621054 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:204621899 original size:17 final size:19
Alignment explanation
Indices: 204621876--204621921 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
204621866 AAGAAGCATG
204621876 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
204621894 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
204621912 AATCATGCTC
1 AATCATGCTC
204621922 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:204628922 original size:40 final size:40
Alignment explanation
Indices: 204628877--204629043 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
204628867 CGGAATATAA
204628877 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
204628917 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
204628957 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
204628997 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
204629036 CCGGATAT
1 CCGGATAT
204629044 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204629027 original size:80 final size:79
Alignment explanation
Indices: 204628877--204629043 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
204628867 CGGAATATAA
* *
204628877 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
204628942 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
204628957 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
204629019 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
204629036 CCGGATAT
1 CCGGATAT
204629044 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:204629892 original size:17 final size:19
Alignment explanation
Indices: 204629869--204629914 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
204629859 AAGAAGCATG
204629869 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
204629887 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
204629905 AATCATGCTC
1 AATCATGCTC
204629915 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:204633227 original size:40 final size:39
Alignment explanation
Indices: 204633170--204633354 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 39
204633160 TCGAATGATG
* * *
204633170 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
204633210 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
204633250 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
204633290 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
204633331 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
204633355 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 14 0.11
40 108 0.82
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:204635240 original size:28 final size:28
Alignment explanation
Indices: 204635194--204635262 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
204635184 TTTAAAACCC
*
204635194 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204635221 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204635249 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
204635263 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:204636911 original size:20 final size:20
Alignment explanation
Indices: 204636888--204636925 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
204636878 CACATCCAAA
*
204636888 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
204636908 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
204636926 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:204643237 original size:28 final size:28
Alignment explanation
Indices: 204643191--204643259 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
204643181 TTTAAAACCC
*
204643191 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204643218 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204643246 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
204643260 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:204644910 original size:20 final size:20
Alignment explanation
Indices: 204644887--204644924 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
204644877 CACATCCAAA
*
204644887 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
204644907 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
204644925 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:204645236 original size:23 final size:23
Alignment explanation
Indices: 204645208--204645251 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
204645198 CATGCTAATA
204645208 ATAAATGCAATC-ATCATGCATTC
1 ATAAAT-CAATCAATCATGCATTC
*
204645231 ATAAATCAATCAATTATGCAT
1 ATAAATCAATCAATCATGCAT
204645252 ATTAGGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (23 bp):
ATAAATCAATCAATCATGCATTC
Found at i:204649911 original size:9 final size:9
Alignment explanation
Indices: 204649887--204649917 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
204649877 TCAAATCTGT
204649887 TTCATCTTC
1 TTCATCTTC
204649896 TTC-TCTTC
1 TTCATCTTC
204649904 TTCATCTTC
1 TTCATCTTC
204649913 TTCAT
1 TTCAT
204649918 TGGTTGCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.58
Consensus pattern (9 bp):
TTCATCTTC
Found at i:204659133 original size:47 final size:47
Alignment explanation
Indices: 204659049--204659146 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
204659039 GATATATCAG
*
204659049 CTCATAAGAGCTTACTATTTTCAGCTCGTTGAAGCTTATC-GTTTCAA
1 CTCATAAGAGCTTACTATTTTCAGCTCGTAGAAGCTTA-CAGTTTCAA
* * * *
204659096 CTCATAAGAGTTTACTGTTTTCAGCTCGTCAG-TGCTTACAGTTTCAG
1 CTCATAAGAGCTTACTATTTTCAGCTCGT-AGAAGCTTACAGTTTCAA
204659143 CTCA
1 CTCA
204659147 ATAGAGCCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
46 1 0.02
47 42 0.95
48 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (47 bp):
CTCATAAGAGCTTACTATTTTCAGCTCGTAGAAGCTTACAGTTTCAA
Found at i:204660600 original size:46 final size:46
Alignment explanation
Indices: 204660533--204660788 Score: 265
Period size: 46 Copynumber: 5.8 Consensus size: 46
204660523 TGTAACCCGC
*
204660533 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCAT
204660579 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-A----T-G---
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCAT
* * *
204660616 CCAGTCA-CGAACTCGGACTCAACTCAACGAGCTCG-GCGTTCGCAT
1 CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCAT
*
204660661 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-G-C--GTTCGCAT
* * *
204660711 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCG-GACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAG-CGTTCGCAT
204660754 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
204660789 GATGCCCAAA
Statistics
Matches: 174, Mismatches: 15, Indels: 42
0.75 0.06 0.18
Matches are distributed among these distances:
37 28 0.16
38 2 0.01
40 1 0.01
41 2 0.01
42 3 0.02
43 3 0.02
44 5 0.03
45 31 0.18
46 62 0.36
47 26 0.15
48 3 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCAT
Found at i:204660679 original size:82 final size:85
Alignment explanation
Indices: 204660541--204660794 Score: 379
Period size: 93 Copynumber: 2.9 Consensus size: 85
204660531 GCCCATAAGT
204660541 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCG-GCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
204660606 CGAGTTC-ATGCC-AG-TCAC
65 CGAGTTCGATGCCTAGTTCAC
204660624 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
204660689 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTC-GATGCCTAG-----T-TCAC
* *
204660716 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
204660781 CGAGTTCGGATGCC
65 CGAGTTC-GATGCC
204660795 CAAATATCCA
Statistics
Matches: 158, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
82 44 0.28
83 27 0.17
84 5 0.03
85 2 0.01
92 31 0.20
93 49 0.31
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (85 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGATGCCTAGTTCAC
Found at i:204663975 original size:40 final size:41
Alignment explanation
Indices: 204663930--204664096 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
204663920 CGGAATATAA
*
204663930 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
204663970 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
204664010 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
204664050 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
204664089 CCGGATAT
1 CCGGATAT
204664097 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204664938 original size:17 final size:19
Alignment explanation
Indices: 204664915--204664960 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
204664905 AAGAAGCATG
204664915 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
204664933 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
204664951 AATCATGCTC
1 AATCATGCTC
204664961 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:204671963 original size:40 final size:41
Alignment explanation
Indices: 204671918--204672084 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
204671908 CGGAATATAA
*
204671918 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
204671958 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
204671998 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
204672038 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
204672077 CCGGATAT
1 CCGGATAT
204672085 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204672927 original size:17 final size:19
Alignment explanation
Indices: 204672904--204672949 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
204672894 AAGAAGCATG
204672904 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
204672922 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
204672940 AATCATGCTC
1 AATCATGCTC
204672950 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:204675030 original size:27 final size:27
Alignment explanation
Indices: 204674995--204675193 Score: 236
Period size: 27 Copynumber: 7.4 Consensus size: 27
204674985 CCCCGAAGTA
* *
204674995 GGTAAAATGACCATAATGCCTCTATAG
1 GGTAAAATGACCATAATGCCCCTGTAG
**
204675022 GGTAAAATGACTGTAATGCCCCTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* *
204675049 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* * *
204675076 GGTAAAATGATCTTAATGCCCCTGTTG
1 GGTAAAATGACCATAATGCCCCTGTAG
* * *
204675103 GGTAAAATGATCATAATGGCCCTGCAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* * *
204675130 GGTAAAATAACCGTAATACCCCTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* * *
204675157 GGTAAAATGACCATAATACCCATGTAT
1 GGTAAAATGACCATAATGCCCCTGTAG
204675184 GGTAAAATGA
1 GGTAAAATGA
204675194 TGATTATGCC
Statistics
Matches: 148, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCATAATGCCCCTGTAG
Found at i:204675093 original size:81 final size:81
Alignment explanation
Indices: 204674995--204675204 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 81
204674985 CCCCGAAGTA
* * * *
204674995 GGTAAAATGACCATAATGCCTCTATAGGGTAAAATGA-CTGTAATGCCCCTGTAGGGTAAAATGA
1 GGTAAAATGACCATAATGCCCCTATAGGGTAAAATGATC-ATAATGCCCCTGCAGGGTAAAATAA
204675059 CCGTAATACCCCTGTAG
65 CCGTAATACCCCTGTAG
* * * * *
204675076 GGTAAAATGATCTTAATGCCCCTGTTGGGTAAAATGATCATAATGGCCCTGCAGGGTAAAATAAC
1 GGTAAAATGACCATAATGCCCCTATAGGGTAAAATGATCATAATGCCCCTGCAGGGTAAAATAAC
204675141 CGTAATACCCCTGTAG
66 CGTAATACCCCTGTAG
* * * * * *
204675157 GGTAAAATGACCATAATACCCATGTATGGTAAAATGATGATTATGCCC
1 GGTAAAATGACCATAATGCCCCTATAGGGTAAAATGATCATAATGCCC
204675205 TTATGTTTCG
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
81 109 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (81 bp):
GGTAAAATGACCATAATGCCCCTATAGGGTAAAATGATCATAATGCCCCTGCAGGGTAAAATAAC
CGTAATACCCCTGTAG
Found at i:204675374 original size:27 final size:26
Alignment explanation
Indices: 204675330--204675415 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
204675320 ATGGAGGAAG
* * * *
204675330 TACTGTACTGATGACTATGTCAC-GT
1 TACTGTACTGGTGGCTATGCCACAAT
204675355 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCACAAT
* *
204675383 TACTGATACTGGTGGCTTTGCCACACT
1 TACTG-TACTGGTGGCTATGCCACAAT
204675410 TACTGT
1 TACTGT
204675416 TCTAGCAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 43 0.84
28 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:204680485 original size:40 final size:40
Alignment explanation
Indices: 204680441--204680540 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
204680431 CGTTCCAATA
* * *
204680441 CCTTCGGGACATAGCCCGGTTATAGT-AGC-TCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCA-CTTAGCACAAA-G
*
204680481 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTTAGCACAAAG
204680521 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
204680541 CATCATTCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 3 0.06
40 36 0.71
41 12 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAG
Found at i:204684175 original size:40 final size:40
Alignment explanation
Indices: 204684067--204684276 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
204684057 CGGGATTTAA
* * * * *
204684067 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
204684107 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204684147 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204684187 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204684227 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204684267 CCGGATATAT
1 CCGGATATAT
204684277 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:204692310 original size:40 final size:40
Alignment explanation
Indices: 204692202--204692411 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
204692192 CGGGATTTAA
* * * * *
204692202 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
204692242 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204692282 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204692322 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204692362 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204692402 CCGGATATAT
1 CCGGATATAT
204692412 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:204702774 original size:40 final size:40
Alignment explanation
Indices: 204702666--204702875 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
204702656 CGGGATTTAA
* * * * *
204702666 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
204702706 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204702746 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204702786 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204702826 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
204702866 CCGGATATAT
1 CCGGATATAT
204702876 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:204711221 original size:93 final size:93
Alignment explanation
Indices: 204711062--204711232 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
204711052 GGATGGTTGA
* *
204711062 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
204711127 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
204711155 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
*
204711220 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
204711233 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:204711235 original size:46 final size:46
Alignment explanation
Indices: 204711066--204711237 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
204711056 GGTTGAGCAT
* * *
204711066 CCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
204711112 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
204711157 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
204711205 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
204711238 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 57 0.55
47 27 0.26
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:204712641 original size:13 final size:13
Alignment explanation
Indices: 204712623--204712652 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
204712613 CAAAAAGACG
204712623 ATATTTTGTTATT
1 ATATTTTGTTATT
204712636 ATATTTTGTTATT
1 ATATTTTGTTATT
204712649 ATAT
1 ATAT
204712653 GCAGTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (13 bp):
ATATTTTGTTATT
Found at i:204713007 original size:19 final size:20
Alignment explanation
Indices: 204712951--204712997 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
204712941 CCAGATTTTA
*
204712951 AATAAAAA-C-ATAAAAAAT
1 AATAAAAACCTATGAAAAAT
204712969 AATAAAAACCTATGAAAAAT
1 AATAAAAACCTATGAAAAAT
204712989 AATAAAAAC
1 AATAAAAAC
204712998 TCATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 17 0.65
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAAAACCTATGAAAAAT
Found at i:204713913 original size:12 final size:11
Alignment explanation
Indices: 204713882--204713914 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
204713872 AATTTTTGTA
204713882 ATTTTTTTTAT
1 ATTTTTTTTAT
204713893 A-TTTTTTTAT
1 ATTTTTTTTAT
204713903 ATTTTTATTTAT
1 ATTTTT-TTTAT
204713915 TCTAAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTTTTAT
Found at i:204713915 original size:20 final size:20
Alignment explanation
Indices: 204713873--204713915 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
204713863 ATAACAATGA
*
204713873 ATTTTTGTAATTTTTTTTAT
1 ATTTTTGTAATTTTTATTAT
*
204713893 ATTTTTTTATATTTTTATT-T
1 ATTTTTGTA-ATTTTTATTAT
204713913 ATT
1 ATT
204713916 CTAAACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
ATTTTTGTAATTTTTATTAT
Found at i:204713926 original size:20 final size:18
Alignment explanation
Indices: 204713903--204713964 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
204713893 ATTTTTTTAT
204713903 ATTTTTATTTATTCTAAACA
1 ATTTTTATTTATT-TAAA-A
*
204713923 ATTTTTA-TTATTTCAAA
1 ATTTTTATTTATTTAAAA
204713940 ATTCTTTATTT-TTTAAAA
1 ATT-TTTATTTATTTAAAA
*
204713958 AATTTTA
1 ATTTTTA
204713965 AATTTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.22
18 15 0.41
19 7 0.19
20 7 0.19
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTATTTATTTAAAA
Found at i:204715457 original size:19 final size:19
Alignment explanation
Indices: 204715430--204715520 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
204715420 ATAATCTTCA
*
204715430 ATGATATGCAATCTTAGAT
1 ATGACATGCAATCTTAGAT
204715449 ATGACATGCAATCTTAGAT
1 ATGACATGCAATCTTAGAT
204715468 ATGACA--CAATCTTAGAT
1 ATGACATGCAATCTTAGAT
*
204715485 ATGA-TTGCAATCTTAGAT
1 ATGACATGCAATCTTAGAT
*
204715503 ATGATATGCAATCTTAGA
1 ATGACATGCAATCTTAGA
204715521 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 36 0.55
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGACATGCAATCTTAGAT
Found at i:204715501 original size:35 final size:37
Alignment explanation
Indices: 204715437--204715520 Score: 127
Period size: 35 Copynumber: 2.3 Consensus size: 37
204715427 TCAATGATAT
204715437 GCAATCTTAGATATGACATGCAATCTTAGATATGACA
1 GCAATCTTAGATATGACATGCAATCTTAGATATGACA
* *
204715474 -CAATCTTAGATATGA-TTGCAATCTTAGATATGATA
1 GCAATCTTAGATATGACATGCAATCTTAGATATGACA
204715509 TGCAATCTTAGA
1 -GCAATCTTAGA
204715521 AGATATGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 18 0.42
36 15 0.35
37 10 0.23
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (37 bp):
GCAATCTTAGATATGACATGCAATCTTAGATATGACA
Found at i:204715556 original size:21 final size:23
Alignment explanation
Indices: 204715512--204715556 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
204715502 TATGATATGC
* *
204715512 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAAATATGAATTTGT
204715535 AATCTTA-AAAAT-TGAATTTGT
1 AATCTTAGAAAATATGAATTTGT
204715556 A
1 A
204715557 GATACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (23 bp):
AATCTTAGAAAATATGAATTTGT
Found at i:204715833 original size:17 final size:17
Alignment explanation
Indices: 204715809--204715843 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
204715799 TGTTTCCCTG
*
204715809 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
204715827 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
204715844 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:204727157 original size:19 final size:18
Alignment explanation
Indices: 204727120--204727163 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
204727110 ACATATACAG
204727120 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
204727137 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
204727156 TACTAATT
1 TAATAATT
204727164 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:204728255 original size:17 final size:18
Alignment explanation
Indices: 204728223--204728263 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
204728213 TTAACAAATA
204728223 GAAAAACTTGAACATTTC
1 GAAAAACTTGAACATTTC
*
204728241 GAAAAACTT-ACCATTTC
1 GAAAAACTTGAACATTTC
*
204728258 CAAAAA
1 GAAAAA
204728264 TACCCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (18 bp):
GAAAAACTTGAACATTTC
Found at i:204729515 original size:28 final size:28
Alignment explanation
Indices: 204729469--204729537 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
204729459 TTTAAAACCC
*
204729469 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204729496 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204729524 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
204729538 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:204731361 original size:19 final size:18
Alignment explanation
Indices: 204731324--204731367 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
204731314 ATACATACAG
204731324 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
204731341 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
204731360 TACTAATT
1 TAATAATT
204731368 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:204733776 original size:27 final size:27
Alignment explanation
Indices: 204733736--204733802 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
204733726 TTTAAAACCC
*
204733736 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTC-T
204733762 TAGGGGTAATTTCGGTAATTTTGCTCT
1 TAGGGGTAATTTCGGTAATTTTGCTCT
204733789 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
204733803 TGATCTACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 7 0.18
27 24 0.63
28 7 0.18
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.42
Consensus pattern (27 bp):
TAGGGGTAATTTCGGTAATTTTGCTCT
Found at i:204735606 original size:17 final size:19
Alignment explanation
Indices: 204735584--204735629 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
204735574 ACATACATAC
204735584 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
204735601 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
204735620 AATACTAATT
1 AATAATAATT
204735630 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:204737096 original size:13 final size:13
Alignment explanation
Indices: 204737073--204737105 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
204737063 AAGGATTTGT
204737073 TTATC-AAAATAA
1 TTATCTAAAATAA
204737085 TTATCTAAAATAA
1 TTATCTAAAATAA
*
204737098 TTAACTAA
1 TTATCTAA
204737106 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (13 bp):
TTATCTAAAATAA
Found at i:204740045 original size:24 final size:23
Alignment explanation
Indices: 204740018--204740071 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
204740008 AATCAAAAGA
*
204740018 AAAATCAAAATAA-AATAAATAAAT
1 AAAAT-AAAAAAAGAATAAAT-AAT
204740042 AAAATAAAAAAAGAATAAATAAT
1 AAAATAAAAAAAGAATAAATAAT
204740065 AAAATAA
1 AAAATAA
204740072 TAGGAGGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAATAAAAAAAGAATAAATAAT
Found at i:204742675 original size:68 final size:69
Alignment explanation
Indices: 204742598--204742749 Score: 179
Period size: 67 Copynumber: 2.2 Consensus size: 69
204742588 CATCATTTGT
** * *
204742598 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACA-ATG-TGTACACC
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCATGGATACAGATGAAGGACACC
204742660 ATGTAG
64 ATGTAG
* * * *
204742666 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCATGGATACAGATGAAGGACACCAT
204742729 GTAG
66 GTAG
204742733 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
204742750 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 19 0.27
65 7 0.10
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCATGGATACAGATGAAGGACACCAT
GTAG
Found at i:204742703 original size:64 final size:66
Alignment explanation
Indices: 204742598--204742773 Score: 171
Period size: 67 Copynumber: 2.6 Consensus size: 66
204742588 CATCATTTGT
* * *
204742598 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACA-ATG-TGTACACCA
1 ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGGGTGATACAGATGAAGGACACCA
204742661 TGTAG
62 TGTAG
** * * *
204742666 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGT-GATACAGATGAAGGACACCATGT
204742731 AG
65 AG
* * *
204742733 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTG
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCGCATGGGTG
204742774 GTACTAAATG
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
64 19 0.21
65 8 0.09
66 16 0.18
67 32 0.35
68 16 0.18
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACAGATGAAGGACACCATGTA
G
Found at i:204745297 original size:22 final size:23
Alignment explanation
Indices: 204745270--204745312 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
204745260 TTATCCCTGG
204745270 CACGCCCATGGTTTT-CTATCCC
1 CACGCCCATGGTTTTCCTATCCC
* *
204745292 CACGCCCGTGTTTTTCCTATC
1 CACGCCCATGGTTTTCCTATC
204745313 AAGTTCACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.12, C:0.40, G:0.14, T:0.35
Consensus pattern (23 bp):
CACGCCCATGGTTTTCCTATCCC
Found at i:204745340 original size:13 final size:13
Alignment explanation
Indices: 204745322--204745346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204745312 CAAGTTCACC
204745322 CACGGCCATGTCA
1 CACGGCCATGTCA
204745335 CACGGCCATGTC
1 CACGGCCATGTC
204745347 GTACGTTCGT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
CACGGCCATGTCA
Found at i:204747875 original size:40 final size:40
Alignment explanation
Indices: 204747830--204747997 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
204747820 CGGAATATAA
204747830 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
204747870 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
204747910 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
204747950 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
204747990 CCGGATAT
1 CCGGATAT
204747998 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204755881 original size:40 final size:40
Alignment explanation
Indices: 204755836--204756003 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
204755826 CGGAATATAA
204755836 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
204755876 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
204755916 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
204755956 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
204755996 CCGGATAT
1 CCGGATAT
204756004 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:204758611 original size:38 final size:39
Alignment explanation
Indices: 204758426--204758612 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 39
204758416 GGATGATAAC
*
204758426 CGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * * *
204758466 CCGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
204758505 CCGGGCTAAGTCCCGAAGGCCATTTG-GCGAGTTACTATAT
1 -CGGGCTAAGTCCCGAAGG-CATTTGTGCGAGTTACTATAT
* * *
204758545 CCGGCTAAGTCCC-AAAGCATTGGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
204758583 CGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
204758613 ATGTGACATC
Statistics
Matches: 124, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
37 5 0.04
38 36 0.29
39 24 0.19
40 49 0.40
41 10 0.08
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:204760335 original size:29 final size:29
Alignment explanation
Indices: 204760264--204760422 Score: 232
Period size: 30 Copynumber: 5.5 Consensus size: 29
204760254 GACAAGATTG
* * * * *
204760264 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
*
204760294 GCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
204760323 GCACTAAGTGTGCGAGCTG-AAA-ATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
204760350 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
204760380 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
204760409 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
204760423 GATTCACTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
27 24 0.20
28 6 0.05
29 42 0.35
30 47 0.39
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:204760397 original size:57 final size:58
Alignment explanation
Indices: 204760264--204760422 Score: 232
Period size: 59 Copynumber: 2.7 Consensus size: 58
204760254 GACAAGATTG
* * * * *
204760264 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATATA
*
204760323 GCACTAAGTGTGCGAGCTG-AAA-ATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAACTGAAAA-TATATA
204760380 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
204760423 GATTCACTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 25 0.27
57 25 0.27
58 6 0.07
59 35 0.38
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:204760409 original size:86 final size:86
Alignment explanation
Indices: 204760264--204760422 Score: 264
Period size: 86 Copynumber: 1.8 Consensus size: 86
204760254 GACAAGATTG
* * * *
204760264 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTA
204760329 AGTGTGCGAGCTGAAAATATA
66 AGTGTGCGAGCTGAAAATATA
* *
204760350 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTA
204760415 AGTGTGCG
66 AGTGTGCG
204760423 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 67 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (86 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACTA
AGTGTGCGAGCTGAAAATATA
Found at i:204767850 original size:31 final size:29
Alignment explanation
Indices: 204767815--204767889 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
204767805 GACAAGATTG
* *
204767815 GCACTAAGTGTGCGGGTTTAAAAATTGTACA
1 GCACTAAGTGTGCGGG-CTAAAAA-TATACA
* * *
204767846 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGGGCTAAAAATATACA
204767875 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
204767890 ATTCACTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 18 0.47
30 5 0.13
31 15 0.39
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGCTAAAAATATACA
Found at i:204775285 original size:59 final size:58
Alignment explanation
Indices: 204775189--204775320 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
204775179 AAAATTGTAC
204775189 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
204775247 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
204775306 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
204775321 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:204775309 original size:88 final size:89
Alignment explanation
Indices: 204775159--204775320 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
204775149 GACAAGATTG
* * *
204775159 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
204775224 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
204775248 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
204775312 AAGTGTGCG
66 AAGTGTGCG
204775321 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:204775332 original size:29 final size:29
Alignment explanation
Indices: 204775189--204775320 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
204775179 AAAATTGTAC
*
204775189 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
204775218 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
204775247 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
204775277 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
204775306 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
204775321 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:204783514 original size:27 final size:28
Alignment explanation
Indices: 204783457--204783526 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
204783447 AAATTTGTAC
**
204783457 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
204783485 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
204783512 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
204783527 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:204783535 original size:27 final size:27
Alignment explanation
Indices: 204783457--204783538 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
204783447 AAATTTGTAC
* *
204783457 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
204783485 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
204783512 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
204783539 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:204791169 original size:38 final size:40
Alignment explanation
Indices: 204791070--204791278 Score: 272
Period size: 39 Copynumber: 5.3 Consensus size: 40
204791060 CGGATGCTAA
* * *
204791070 CGGGTTAAGTCCCGAA--CATTTGTGCTAGTGACTAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
204791107 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
204791147 CGGGCTAA-T-CCGAAGGCATTTGTGCGAGTTACT-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
204791184 CGGGCTAAGTCCCGAAGGCATTTGTGCGA-TTACTATATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT-TC
* * *
204791225 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
204791265 CGGGCTAAGACCCG
1 CGGGCTAAGTCCCG
204791279 GGCCTTGTGC
Statistics
Matches: 156, Mismatches: 7, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
37 27 0.17
38 30 0.19
39 38 0.24
40 28 0.18
41 30 0.19
42 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:204799307 original size:40 final size:41
Alignment explanation
Indices: 204799250--204799459 Score: 263
Period size: 40 Copynumber: 5.3 Consensus size: 41
204799240 CTAACGGGGT
* *
204799250 TAAGTCCCGAAGACATTTGTGCTAGTGACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
204799290 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
204799330 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
204799370 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * * *
204799410 TAAGACCCGACGGC-CTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
204799448 TAAATCCCGAAG
1 TAAGTCCCGAAG
204799460 ATAATTGGGT
Statistics
Matches: 153, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.08
39 18 0.12
40 123 0.80
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:204800969 original size:13 final size:13
Alignment explanation
Indices: 204800951--204800978 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
204800941 GCTTATGACT
204800951 TACTAAGCTGTGA
1 TACTAAGCTGTGA
204800964 TACTAAGCTGTGA
1 TACTAAGCTGTGA
204800977 TA
1 TA
204800979 GCTTACTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (13 bp):
TACTAAGCTGTGA
Found at i:204802062 original size:2 final size:2
Alignment explanation
Indices: 204802055--204802099 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
204802045 GTATGACTTC
*
204802055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
204802096 TA TA
1 TA TA
204802100 GGTCTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:204803631 original size:2 final size:2
Alignment explanation
Indices: 204803624--204803649 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
204803614 GGCTGTAAGC
204803624 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
204803650 TTACGTATGC
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:204807272 original size:46 final size:45
Alignment explanation
Indices: 204807196--204807373 Score: 157
Period size: 46 Copynumber: 3.9 Consensus size: 45
204807186 TGTAACCCGC
** * *
204807196 CCATAAGCAAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTT-GCAT
* * * *
204807242 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG---G-AT-GTTGCAT
* *
204807292 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACAT-TTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--ATGTTGCAT
*
204807335 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
204807374 CTCAACCATC
Statistics
Matches: 107, Mismatches: 15, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
43 5 0.05
44 4 0.04
45 4 0.04
46 57 0.53
47 26 0.24
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTGCAT
Found at i:204807364 original size:93 final size:93
Alignment explanation
Indices: 204807205--204807374 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
204807195 CCCATAAGCA
*** *
204807205 AACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
204807270 GAGTTCGAATGCCTAGTTACATCTCACG
66 GAGTTCGAATGCCTAGTTACATCTCACG
* *
204807298 AACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
204807363 GAGTTCGGATGC
66 GAGTTCGAATGC
204807375 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGAATGCCTAGTTACATCTCACG
Found at i:204809792 original size:15 final size:15
Alignment explanation
Indices: 204809763--204809812 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
204809753 CAAAGATAAC
*
204809763 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
204809777 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
204809792 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
204809807 AAGAAA
1 AAGAAA
204809813 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:204809821 original size:15 final size:15
Alignment explanation
Indices: 204809774--204809821 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
204809764 AGAAAACCGA
204809774 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
204809788 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
204809804 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
204809819 ATA
1 ATA
204809822 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:204812277 original size:28 final size:28
Alignment explanation
Indices: 204812231--204812299 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
204812221 TTTAAAACCC
*
204812231 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204812258 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
204812286 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
204812300 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:204813921 original size:20 final size:20
Alignment explanation
Indices: 204813898--204813935 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
204813888 CACATCCAAA
*
204813898 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
204813918 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
204813936 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:204826786 original size:15 final size:14
Alignment explanation
Indices: 204826749--204826784 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
204826739 CATAAATCAC
204826749 TTTTTTTTCAGAAT
1 TTTTTTTTCAGAAT
*
204826763 TTTTTTTTCGGAAT
1 TTTTTTTTCAGAAT
204826777 TTTTTTTT
1 TTTTTTTT
204826785 TCAAACTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTTTTTTCAGAAT
Found at i:204829694 original size:30 final size:30
Alignment explanation
Indices: 204829660--204829756 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
204829650 TAAACTAAAA
*
204829660 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
204829690 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
204829720 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
204829750 TGAGCTA
1 TGAGCTA
204829757 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Done.