Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 10 of 343
Found at i:3632956 original size:23 final size:23
Alignment explanation
Indices: 3632907--3632962 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
3632897 TATTATCAGT
*
3632907 ATAAAAGAAAGGTAAATTTGAAT
1 ATAAAAGAAAGGTAAATTTGAAC
*
3632930 ATAAAAGAAAGGTAAATTTGAGC
1 ATAAAAGAAAGGTAAATTTGAAC
3632953 ATAAAA-AAAG
1 ATAAAAGAAAG
3632963 ACTATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.59, C:0.02, G:0.18, T:0.21
Consensus pattern (23 bp):
ATAAAAGAAAGGTAAATTTGAAC
Found at i:3639376 original size:15 final size:15
Alignment explanation
Indices: 3639356--3639385 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3639346 TTTATGGAAG
3639356 TTTGTACCTCTTAAA
1 TTTGTACCTCTTAAA
3639371 TTTGTACCTCTTAAA
1 TTTGTACCTCTTAAA
3639386 CTGGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TTTGTACCTCTTAAA
Found at i:3640466 original size:7 final size:7
Alignment explanation
Indices: 3640454--3640479 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3640444 ATATATATTT
3640454 ATTTTGG
1 ATTTTGG
3640461 ATTTTGG
1 ATTTTGG
3640468 ATTTTGG
1 ATTTTGG
3640475 ATTTT
1 ATTTT
3640480 TTTGGGTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (7 bp):
ATTTTGG
Found at i:3646368 original size:46 final size:47
Alignment explanation
Indices: 3646260--3646369 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 47
3646250 CCGGGATAAG
*
3646260 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
3646307 CACAAAGTACTTCATCGGAACAAATCC-GAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
3646353 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
3646370 ACTCAATGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 27 0.49
47 27 0.49
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:3656540 original size:13 final size:13
Alignment explanation
Indices: 3656522--3656560 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3656512 ATGATTAAAG
3656522 TATATTATAATAA
1 TATATTATAATAA
3656535 TATATTATAATAA
1 TATATTATAATAA
*
3656548 TATAATATAATAA
1 TATATTATAATAA
3656561 AGTAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATTATAATAA
Found at i:3656598 original size:13 final size:13
Alignment explanation
Indices: 3656568--3656608 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
3656558 TAAAGTAATT
3656568 AAATAAAA-AATA-
1 AAATAAAAGAA-AG
3656580 AAATAAAAGAAAG
1 AAATAAAAGAAAG
3656593 AAATAAAAGAAAG
1 AAATAAAAGAAAG
3656606 AAA
1 AAA
3656609 GAATGAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:3663713 original size:46 final size:46
Alignment explanation
Indices: 3663671--3663965 Score: 430
Period size: 46 Copynumber: 6.4 Consensus size: 46
3663661 ATGAAATATG
* *
3663671 TAAGACCATGGCTGAAAGATACCATGGCAACATGATATGAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
* *
3663717 TAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
* **
3663763 TAAGACCATGGTTGAAATATACCATGGCAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
*
3663809 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATGAAATGAA
* ***
3663855 TAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
*** *
3663901 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
3663947 TAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
3663966 GAATAAAACC
Statistics
Matches: 229, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 228 1.00
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
Found at i:3663909 original size:138 final size:137
Alignment explanation
Indices: 3663661--3664140 Score: 480
Period size: 138 Copynumber: 3.3 Consensus size: 137
3663651 GCTTTCTGAA
* * * *
3663661 ATGAAATATGTAAGACCATGGCTGAAAGATACCATGGCAACATGA-TATGAAATGTATAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAATGAATAAGACCA
* * * *
3663725 TGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTTGAAATATACCATGG
65 TGGTTGAAAGATACCATGGCAA-TTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
*
3663790 CAACATGAT
129 CAACATGAC
3663799 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
**
3663864 GGTTGAAAGATACCATGGCAATATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAAT-TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
3663929 AACATGAC
130 AACATGAC
** *
3663937 GGGAAAT-TAATAAGACCATGGTTGAAAGAGAATAAAACCATGGTTGAAAGATACCATGGCAACA
1 ATGAAATGT-GTAAGACCATGGTT------G------A--A--------AGATACCATGGCAACA
* * * *
3664001 TGACGGGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAGCTTGACATGAAATGAACAAGA
43 TGACGAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA-ATTGACATGAAATGAATAAGA
3664066 CCATGGTTGAAAGATACCATGGCAACATGAC
107 CCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
3664097 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
3664141 TCAAAGATAA
Statistics
Matches: 287, Mismatches: 27, Indels: 56
0.78 0.07 0.15
Matches are distributed among these distances:
137 1 0.00
138 157 0.55
139 1 0.00
144 1 0.00
146 1 0.00
148 1 0.00
150 1 0.00
152 1 0.00
154 1 0.00
159 1 0.00
160 120 0.42
161 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (137 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAATTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
ACATGAC
Found at i:3663970 original size:22 final size:22
Alignment explanation
Indices: 3663945--3663987 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3663935 ACGGGAAATT
*
3663945 AATAAGACCATGGTTGAAAGAG
1 AATAAAACCATGGTTGAAAGAG
3663967 AATAAAACCATGGTTGAAAGA
1 AATAAAACCATGGTTGAAAGA
3663988 TACCATGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (22 bp):
AATAAAACCATGGTTGAAAGAG
Found at i:3663990 original size:160 final size:160
Alignment explanation
Indices: 3663813--3664125 Score: 511
Period size: 160 Copynumber: 2.0 Consensus size: 160
3663803 AATGTGTAAG
3663813 ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
* * * *
3663878 ATGGCA-ATATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAA
66 ATGGCAGAT-TGACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAA
* *
3663942 ATTAATAAGACCATGGTTGAAAGAGAATAAA
130 ATGAATAAGACCATAGTTGAAAGAGAATAAA
* *
3663973 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
* *
3664038 ATGGCAGCTTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
66 ATGGCAGATTGACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
*
3664103 TGAGTAAGACCATAGTTGAAAGA
131 TGAATAAGACCATAGTTGAAAGA
3664126 CACTATGGCA
Statistics
Matches: 141, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
160 140 0.99
161 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.19
Consensus pattern (160 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAGATTGACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
TGAATAAGACCATAGTTGAAAGAGAATAAA
Found at i:3664007 original size:68 final size:68
Alignment explanation
Indices: 3663898--3664033 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
3663888 GACGGGAAAT
* *
3663898 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAATAAGACCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
3663963 AGA
66 AGA
*
3663966 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
3664031 AGA
66 AGA
3664034 TACCATGGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.19
Consensus pattern (68 bp):
GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
AGA
Found at i:3664033 original size:46 final size:46
Alignment explanation
Indices: 3663966--3664140 Score: 233
Period size: 46 Copynumber: 3.8 Consensus size: 46
3663956 GGTTGAAAGA
* *
3663966 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
* * * *
3664012 GAATAAGATCATGGTTGAAAGATACCATGGCAGCTTGACATGAAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
* *
3664058 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
* * * * *
3664104 GAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATG
3664141 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
Found at i:3664035 original size:206 final size:206
Alignment explanation
Indices: 3663760--3664140 Score: 575
Period size: 206 Copynumber: 1.8 Consensus size: 206
3663750 GATATGAAAT
* * * * **
3663760 GAATAAGACCATGGTTGAAATATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAA
* *
3663825 AGATACCATGGCAACATGACGA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATATG
66 AGATACCATGGCAACATGAC-ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * *
3663889 ACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAATAAGACC
130 ACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAAATTAATAAGACC
3663954 ATGGTTGAAAGA
195 ATGGTTGAAAGA
* *
3663966 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAA
* *
3664031 AGATACCATGGCAGCTTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
66 AGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
* * *
3664096 CAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
131 CAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
3664141 TCAAAGATAA
Statistics
Matches: 155, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
205 1 0.01
206 154 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (206 bp):
GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAA
AGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
CAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAAATTAATAAGACCA
TGGTTGAAAGA
Found at i:3664057 original size:114 final size:114
Alignment explanation
Indices: 3663852--3664079 Score: 375
Period size: 114 Copynumber: 2.0 Consensus size: 114
3663842 GACGAGAAAT
* *
3663852 GAATAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGAAATGAATAAGACCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
* * *
3663917 AGATACCATGGCAACATGACGGGAAATTAATAAGACCATGGTTGAAAGA
66 AGATACCATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGA
*
3663966 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
* * *
3664031 AGATACCATGGCAGCTTGACATGAAATGAACAAGACCATGGTTGAAAGA
66 AGATACCATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGA
3664080 TACCATGGCA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (114 bp):
GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
AGATACCATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGA
Found at i:3667705 original size:13 final size:13
Alignment explanation
Indices: 3667658--3667699 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3667648 TAAAGTAATT
* *
3667658 AAATAAAACAAATA
1 AAATAAAAGAAA-G
3667672 AAATAAAAGAAAG
1 AAATAAAAGAAAG
3667685 AAATAAAAGAAAG
1 AAATAAAAGAAAG
3667698 AA
1 AA
3667700 TGAAAACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:3668687 original size:19 final size:20
Alignment explanation
Indices: 3668649--3668690 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
3668639 AACCAAGAAA
3668649 CAGTCCCATACCTCCACTACAG
1 CAGTCCCATACCT-C-CTACAG
3668671 CAGTCCCATACCT-CTACAG
1 CAGTCCCATACCTCCTACAG
3668690 C
1 C
3668691 CCTCGTACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
22 13 0.65
ACGTcount: A:0.26, C:0.45, G:0.10, T:0.19
Consensus pattern (20 bp):
CAGTCCCATACCTCCTACAG
Found at i:3671581 original size:131 final size:131
Alignment explanation
Indices: 3671268--3671633 Score: 412
Period size: 131 Copynumber: 2.8 Consensus size: 131
3671258 TTATTCATTC
* * *
3671268 AAAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * * *
3671333 TTGGGATGCAATTTTGCGTTTGCTCAAAATAATCGAATAGCACTTCGAAATTTCACTCACGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
3671398 T
131 T
* * *
3671399 TAAAATTCTTCAAAACGAAGACAAGATTCGATACTT-AGCAATTCGCGGAATCGTGCCCTAACGT
1 AAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGA-CAATTCGCGGAATCGTGCCCTAACGT
* * * * * * *
3671463 GTTGGGTTGCAATTTCGCGTTTGCTCAAAGTAATTGAGTATCCCTTCAAAATTTCATTCATATCT
65 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCT
3671528 TCT
130 T-T
* * * ** * * *
3671531 AAAAATTATTTAAAACGAAGGCAACATTCGGCATTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* ** * * **
3671595 CTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATA
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATA
3671634 TTCTTTTATA
Statistics
Matches: 194, Mismatches: 38, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
131 157 0.81
132 36 0.19
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
T
Found at i:3673921 original size:13 final size:13
Alignment explanation
Indices: 3673903--3673932 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3673893 TTCTTGTAAA
3673903 CATTTCATACAAC
1 CATTTCATACAAC
*
3673916 CATTTCATATAAC
1 CATTTCATACAAC
3673929 CATT
1 CATT
3673933 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:3674131 original size:46 final size:46
Alignment explanation
Indices: 3674069--3674632 Score: 808
Period size: 46 Copynumber: 12.2 Consensus size: 46
3674059 TTTCTGTCAT
* ** * *
3674069 GTTGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * ** * *
3674115 GTTGCCATAGTGTCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * *
3674161 GTTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCATTTTC-TATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAC
* *
3674211 GTTGCCATAGTATCTTTCAACCATGGTTTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
3674257 GTTGCCATGGTATCTTTCAA-CATGGTCTTGCACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3674302 ATTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * *
3674348 GTTGCGATGGTATCTTTCAACCATGGTCTTACGCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3674394 GTTGCCATGCTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
3674440 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3674486 GTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
3674532 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3674578 GTTGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
3674624 GTTGCCATG
1 GTTGCCATG
3674633 CTAGATGAAT
Statistics
Matches: 482, Mismatches: 29, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
45 46 0.10
46 396 0.82
48 2 0.00
50 34 0.07
51 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:3675758 original size:19 final size:19
Alignment explanation
Indices: 3675734--3675772 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3675724 AATTTTTCCC
3675734 TTTTTTCCTT-CTTTCTTTT
1 TTTTTTCCTTCCTTT-TTTT
3675753 TTTTTTCCTTCCTTTTTTT
1 TTTTTTCCTTCCTTTTTTT
3675772 T
1 T
3675773 CCCTGCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTCCTTCCTTTTTTT
Found at i:3676879 original size:20 final size:20
Alignment explanation
Indices: 3676849--3676900 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
3676839 CCCATGGTCT
*
3676849 AGCCCCACGGGCATGTTCCA
1 AGCCACACGGGCATGTTCCA
*
3676869 GGCCACACGGGCATGTTCCA
1 AGCCACACGGGCATGTTCCA
*
3676889 AGCCATACGGGC
1 AGCCACACGGGC
3676901 GTGTGCCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.13
Consensus pattern (20 bp):
AGCCACACGGGCATGTTCCA
Found at i:3678088 original size:19 final size:19
Alignment explanation
Indices: 3678066--3678126 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
3678056 AATGTGCACT
3678066 TAAAATCATATAGCGATCA
1 TAAAATCATATAGCGATCA
* *
3678085 TAAATATTCAAAGTA-C-A-CT
1 TAAA-A-TCATA-TAGCGATCA
3678104 TAAAATCATATAGCGATCA
1 TAAAATCATATAGCGATCA
3678123 TAAA
1 TAAA
3678127 TATTCAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 2 0.06
19 14 0.44
20 2 0.06
21 5 0.16
22 2 0.06
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (19 bp):
TAAAATCATATAGCGATCA
Found at i:3678440 original size:18 final size:18
Alignment explanation
Indices: 3678419--3678482 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
3678409 TAGCAATCGG
*
3678419 TTATTCAGTAACGGTCAA
1 TTATTCAGTAACAGTCAA
*
3678437 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
* *
3678455 TCT-TTCAGTAATAGTTAA
1 T-TATTCAGTAACAGTCAA
3678473 TTATTCAGTA
1 TTATTCAGTA
3678483 CATTTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 1 0.03
18 37 0.95
19 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:3678909 original size:19 final size:19
Alignment explanation
Indices: 3678861--3678912 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
3678851 CATTCAGTAC
*
3678861 ATATTTCAGCTAATCATAT
1 ATATTTCAGTTAATCATAT
3678880 ATATTTTCAGTTCAAT-ATAT
1 ATA-TTTCAGTT-AATCATAT
3678900 ATATTTCAGTTAA
1 ATATTTCAGTTAA
3678913 CTTTACATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 11 0.37
20 14 0.47
21 3 0.10
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.46
Consensus pattern (19 bp):
ATATTTCAGTTAATCATAT
Found at i:3679401 original size:19 final size:18
Alignment explanation
Indices: 3679361--3679410 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
3679351 TAATATTAAT
3679361 TTAATAATAAA--AATCA
1 TTAATAATAAATTAATCA
3679377 -TAATAATAAATTAATCAA
1 TTAATAATAAATTAATC-A
*
3679395 TTAATAATAATTTAAT
1 TTAATAATAAATTAAT
3679411 ATATTTTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.34
17 4 0.14
18 1 0.03
19 14 0.48
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAATAATAAATTAATCA
Found at i:3681769 original size:37 final size:38
Alignment explanation
Indices: 3681728--3681811 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 38
3681718 TGTGGCGTGT
* * *
3681728 AGGGTGGATAAGCCTA-TCATGGTTC-TATGTGGTGCGC
1 AGGGTGGACAAGCCTACT-ATAGTCCTTATGTGGTGCGC
* *
3681765 AGGGTGGACGAGCCTACTATAGTCCTTATGTGGTGTGC
1 AGGGTGGACAAGCCTACTATAGTCCTTATGTGGTGCGC
3681803 AGGGTGGAC
1 AGGGTGGAC
3681812 GAAGTGGTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 19 0.47
38 21 0.52
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (38 bp):
AGGGTGGACAAGCCTACTATAGTCCTTATGTGGTGCGC
Found at i:3684103 original size:6 final size:6
Alignment explanation
Indices: 3684068--3684106 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
3684058 TGGTCTCTTT
* * *
3684068 GCAATG CCAATT GCAATT GCAATG GCAATG GCAATG GCA
1 GCAATG GCAATG GCAATG GCAATG GCAATG GCAATG GCA
3684107 CCACCATGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (6 bp):
GCAATG
Found at i:3684525 original size:4 final size:4
Alignment explanation
Indices: 3684516--3684563 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
3684506 ACCATATACA
*
3684516 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3684564 TTTTTCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:3685343 original size:20 final size:19
Alignment explanation
Indices: 3685300--3685353 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
3685290 AAAATGACAG
*
3685300 AAAATTATATT-TTGAAAAT
1 AAAATAATATTATT-AAAAT
3685319 AAAAT-ATATGTATTAAAATT
1 AAAATAATAT-TATTAAAA-T
3685339 AAAATAATATTATTA
1 AAAATAATATTATTA
3685354 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.13
19 10 0.32
20 13 0.42
21 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
AAAATAATATTATTAAAAT
Found at i:3690983 original size:17 final size:17
Alignment explanation
Indices: 3690942--3690984 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3690932 TATTGGGTGT
* *
3690942 GAGTTTTTCTTAAACAA
1 GAGTTATTCCTAAACAA
* *
3690959 TAGATATTCCTAAACAA
1 GAGTTATTCCTAAACAA
3690976 GAGTTATTC
1 GAGTTATTC
3690985 TAACCTGTTC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (17 bp):
GAGTTATTCCTAAACAA
Found at i:3691888 original size:16 final size:17
Alignment explanation
Indices: 3691869--3691910 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
3691859 TGTTATTTTA
3691869 AATAATAATTGTTCTC-
1 AATAATAATTGTTCTCG
*
3691885 AATAA-AATTTTTCTCG
1 AATAATAATTGTTCTCG
3691901 AATAATAATT
1 AATAATAATT
3691911 ATATTTGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (17 bp):
AATAATAATTGTTCTCG
Found at i:3692688 original size:15 final size:15
Alignment explanation
Indices: 3692657--3692685 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3692647 AACCCAACGA
3692657 ATATATATACATATT
1 ATATATATACATATT
3692672 ATATATATA-ATATT
1 ATATATATACATATT
3692686 TATTCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATACATATT
Found at i:3698476 original size:17 final size:19
Alignment explanation
Indices: 3698442--3698478 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
3698432 TTTCTCCTTC
*
3698442 TCTCTCCCCTTCCTCTTTT
1 TCTCTCCCCATCCTCTTTT
3698461 TCTCT-CCCATCC-CTTTT
1 TCTCTCCCCATCCTCTTTT
3698478 T
1 T
3698479 TTTTTTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (19 bp):
TCTCTCCCCATCCTCTTTT
Found at i:3698480 original size:19 final size:19
Alignment explanation
Indices: 3698442--3698479 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3698432 TTTCTCCTTC
* *
3698442 TCTCTCCCCTTCCTCTTTT
1 TCTCTCCCATCCCTCTTTT
3698461 TCTCTCCCATCCCT-TTTT
1 TCTCTCCCATCCCTCTTTT
3698479 T
1 T
3698480 TTTTTCTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.53
Consensus pattern (19 bp):
TCTCTCCCATCCCTCTTTT
Found at i:3704717 original size:14 final size:16
Alignment explanation
Indices: 3704677--3704710 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
3704667 TGGGTGAATG
3704677 AAAATATTTTTATATTA
1 AAAATA-TTTTATATTA
3704694 AAAATATTTT-TATTA
1 AAAATATTTTATATTA
3704709 AA
1 AA
3704711 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATATTTTATATTA
Found at i:3705272 original size:14 final size:15
Alignment explanation
Indices: 3705253--3705288 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3705243 CCATATCAAC
3705253 AAAAATA-TTTTTAA
1 AAAAATATTTTTTAA
*
3705267 AAAAATATTTTTTAT
1 AAAAATATTTTTTAA
3705282 AAAAATA
1 AAAAATA
3705289 AAATATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAAATATTTTTTAA
Found at i:3705303 original size:19 final size:20
Alignment explanation
Indices: 3705268--3705306 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3705258 TATTTTTAAA
*
3705268 AAAATATTTTTTATAAAAAT
1 AAAATATTTTCTATAAAAAT
3705288 AAAATATTTTCT-TAAAAAT
1 AAAATATTTTCTATAAAAAT
3705307 TAATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATATTTTCTATAAAAAT
Found at i:3705396 original size:21 final size:22
Alignment explanation
Indices: 3705372--3705420 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
3705362 AGTACAAAAC
3705372 TAAAAAAAACT-TT-AAAAATTA
1 TAAAAAAAA-TATTAAAAAATTA
3705393 TAAAAAAAATATTAAAAAAATTA
1 TAAAAAAAATATT-AAAAAATTA
3705416 TAAAA
1 TAAAA
3705421 TACATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.44
23 13 0.52
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAAAAAATATTAAAAAATTA
Found at i:3705399 original size:11 final size:11
Alignment explanation
Indices: 3705385--3705420 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
3705375 AAAAAACTTT
3705385 AAAAATTATAA
1 AAAAATTATAA
*
3705396 AAAAAATATTAA
1 AAAAATTA-TAA
3705408 AAAAATTATAA
1 AAAAATTATAA
3705419 AA
1 AA
3705421 TACATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:3705400 original size:12 final size:12
Alignment explanation
Indices: 3705385--3705420 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
3705375 AAAAAACTTT
3705385 AAAAATTATAAA
1 AAAAATTATAAA
*
3705397 AAAAA-TATTAA
1 AAAAATTATAAA
3705408 AAAAATTATAAA
1 AAAAATTATAAA
3705420 A
1 A
3705421 TACATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:3705427 original size:23 final size:22
Alignment explanation
Indices: 3705385--3705432 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
3705375 AAAAAACTTT
3705385 AAAAATTATAAAAAAAATATTAA
1 AAAAATTATAAAAAAAATA-TAA
* *
3705408 AAAAATTATAAAATACATATAA
1 AAAAATTATAAAAAAAATATAA
3705430 AAA
1 AAA
3705433 TTTCAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATTATAAAAAAAATATAA
Found at i:3706873 original size:22 final size:23
Alignment explanation
Indices: 3706831--3706873 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3706821 AATTCTGAAA
* *
3706831 AATTATAATTTAATCATTTAACT
1 AATTAAAATTGAATCATTTAACT
3706854 AATTAAAATTGAA-CATTTAA
1 AATTAAAATTGAATCATTTAA
3706874 GTCACCCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTAAAATTGAATCATTTAACT
Found at i:3711718 original size:13 final size:12
Alignment explanation
Indices: 3711700--3711732 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
3711690 GGGCCCAAAA
3711700 CAAATAACCTACC
1 CAAATAACCT-CC
3711713 CAAATAA-CTCC
1 CAAATAACCTCC
3711724 CAAATAACC
1 CAAATAACC
3711733 CCAGACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 3 0.16
13 7 0.37
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAATAACCTCC
Found at i:3713253 original size:14 final size:14
Alignment explanation
Indices: 3713234--3713266 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3713224 TTGTTTTTAT
3713234 ATATATGTATATAG
1 ATATATGTATATAG
*
3713248 ATATATGTATATAT
1 ATATATGTATATAG
3713262 ATATA
1 ATATA
3713267 GTAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (14 bp):
ATATATGTATATAG
Found at i:3713835 original size:21 final size:21
Alignment explanation
Indices: 3713809--3713851 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3713799 TTACCACCAC
3713809 TATTATCATTATCAACATTAT
1 TATTATCATTATCAACATTAT
* * *
3713830 TATTATCGTTTTCATCATTAT
1 TATTATCATTATCAACATTAT
3713851 T
1 T
3713852 GTCATTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTATCATTATCAACATTAT
Found at i:3714106 original size:25 final size:24
Alignment explanation
Indices: 3714056--3714103 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3714046 TAAATTACAT
3714056 TATGTTTTTACTCAATGCCTTAAA
1 TATGTTTTTACTCAATGCCTTAAA
3714080 TATGTTTTTACTCAATGCCTTAAA
1 TATGTTTTTACTCAATGCCTTAAA
3714104 ATAATTCTTT
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:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (24 bp):
TATGTTTTTACTCAATGCCTTAAA
Found at i:3715692 original size:25 final size:24
Alignment explanation
Indices: 3715650--3715700 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
3715640 GGGAAAGTCT
3715650 AATGCAAATAATGCAATGCAATGCA
1 AATGCAAATAATGCAATG-AATGCA
*
3715675 AATGCAAATGCATG-AATGAATGCA
1 AATGCAAAT-AATGCAATGAATGCA
3715699 AA
1 AA
3715701 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 13 0.54
26 3 0.12
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
AATGCAAATAATGCAATGAATGCA
Found at i:3718072 original size:20 final size:19
Alignment explanation
Indices: 3718035--3718072 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3718025 AATATATACA
*
3718035 TAAAGGTATATGATAATAT
1 TAAAGGTATATCATAATAT
3718054 TAAAGGTATATACATAATA
1 TAAAGGTATAT-CATAATA
3718073 AAAAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (19 bp):
TAAAGGTATATCATAATAT
Found at i:3718478 original size:26 final size:28
Alignment explanation
Indices: 3718449--3718505 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 28
3718439 GCTCTCCCCA
3718449 AAAAAAAACCTAA-CCAAAAA-AAAAAG
1 AAAAAAAACCTAACCCAAAAAGAAAAAG
3718475 --AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAAAACCTAACCCAAAAAGAAAAAG
3718501 AAAAA
1 AAAAA
3718506 CCTAACCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 11 0.41
25 7 0.26
26 6 0.22
28 3 0.11
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.04
Consensus pattern (28 bp):
AAAAAAAACCTAACCCAAAAAGAAAAAG
Found at i:3718522 original size:24 final size:24
Alignment explanation
Indices: 3718448--3718525 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 24
3718438 AGCTCTCCCC
3718448 AAAA-AAAAACCTAA-CCAAAAAA
1 AAAAGAAAAACCTAACCCAAAAAA
3718470 AAAAGAAAAAACCTAACCCAAAAAGA
1 AAAAG-AAAAACCTAACCCAAAAA-A
3718496 AAAAGAAAAACCTAACCCCCAAAAAA
1 AAAAGAAAAACCTAA--CCCAAAAAA
3718522 AAAA
1 AAAA
3718526 CCAAGAAACC
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.08
24 10 0.20
25 17 0.34
26 11 0.22
27 8 0.16
ACGTcount: A:0.72, C:0.21, G:0.04, T:0.04
Consensus pattern (24 bp):
AAAAGAAAAACCTAACCCAAAAAA
Found at i:3720067 original size:17 final size:17
Alignment explanation
Indices: 3720045--3720080 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3720035 TTTTTTTACG
3720045 TCGCTACAGCTGGCGAC
1 TCGCTACAGCTGGCGAC
3720062 TCGCTACAGCTGGCGAC
1 TCGCTACAGCTGGCGAC
3720079 TC
1 TC
3720081 CACTGGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (17 bp):
TCGCTACAGCTGGCGAC
Found at i:3721049 original size:12 final size:12
Alignment explanation
Indices: 3721032--3721067 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3721022 ATTCATTTGA
3721032 CATTCATGCATT
1 CATTCATGCATT
3721044 CATTCATGCATT
1 CATTCATGCATT
*
3721056 CATTCATACATT
1 CATTCATGCATT
3721068 GCATATCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:3729748 original size:73 final size:71
Alignment explanation
Indices: 3729525--3729759 Score: 247
Period size: 72 Copynumber: 3.3 Consensus size: 71
3729515 GAGTTAAGCC
* * * * * * *
3729525 TTTT-AATTTTTGTTTTTCAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCGGGGCATGC
1 TTTTCAATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
3729589 TGAGGTA
65 TGAGGTA
* * ** *
3729596 TTTTCAATTTTTGTATTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTCTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
3729661 TGAGGTA
65 TGAGGTA
* * * *
3729668 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGTCACG
1 TTTTCAATTTCTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
** *
3729733 CCAATGTA
64 CTGAGGTA
*
3729741 TTTTCAATTTCTGTCTTCA
1 TTTTCAATTTCTGTTTTCA
3729760 TTATTATGTT
Statistics
Matches: 135, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
71 7 0.05
72 72 0.53
73 56 0.41
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTA
Found at i:3729836 original size:88 final size:88
Alignment explanation
Indices: 3729687--3730009 Score: 436
Period size: 88 Copynumber: 3.8 Consensus size: 88
3729677 TCTGTTTGTC
* * *
3729687 AAGAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGTCACGCCAATGTATTTTCAATTTC
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
3729752 TGTCTTCATTATTATGTTTTTAA
66 TGTCTTCATTATTATGTTTTTAA
*
3729775 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTT
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
* *
3729840 TGTTTTCATTATTATGTTTTTGA
66 TGTCTTCATTATTATGTTTTTAA
* *
3729863 AAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATT
3729928 TCTGTCTTTCA--A--A-------AA
64 TCTGTC-TTCATTATTATGTTTTTAA
* * *
3729943 AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
3730007 TGT
66 TGT
3730010 TGTCAAAAAA
Statistics
Matches: 216, Mismatches: 16, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
77 24 0.11
79 36 0.17
80 3 0.01
87 1 0.00
88 122 0.56
89 1 0.00
90 25 0.12
91 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (88 bp):
AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
TGTCTTCATTATTATGTTTTTAA
Found at i:3730003 original size:167 final size:160
Alignment explanation
Indices: 3729866--3730182 Score: 405
Period size: 165 Copynumber: 2.0 Consensus size: 160
3729856 TTTTTGAAAG
* *
3729866 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT-C
1 AATCAACTAGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
3729930 -TGTC-TT-T-C-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
66 TTGTCATTCTCCTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * *
3729990 GAGGTAATTTCAATTTCTGTTGTC-AAAAA
131 GAGGTATTTTCAATTTTTGTTTTCAAAAAA
*
3730019 AATCAACTAGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTAGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * * * *
3730084 GTTTTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCAAGA
66 --TTGTC-A-TTCT-CC-TAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * *
3730149 CACGTTGAGGTATTTTTAATTGTTGTTTTCAAAA
125 CACGCTGAGGTATTTTCAATTTTTGTTTTCAAAA
3730183 TCAACTCATA
Statistics
Matches: 137, Mismatches: 14, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
153 60 0.44
154 1 0.01
157 3 0.02
160 2 0.01
161 1 0.01
163 1 0.01
165 66 0.48
166 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (160 bp):
AATCAACTAGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
TTGTCATTCTCCTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTTTGTTTTCAAAAAA
Found at i:3730051 original size:74 final size:77
Alignment explanation
Indices: 3729866--3730082 Score: 307
Period size: 74 Copynumber: 2.8 Consensus size: 77
3729856 TTTTTGAAAG
*
3729866 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTAGTATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTATTTTCAATTTCT
*
3729931 GTCTTTCAAAAAAA
65 GTCTGTC-AAAAAA
* * *
3729945 AATCAACTCA-TATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCT
1 AATCAACT-AGTATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAATTTCT
3730008 GT-TGTC-AAAAA
65 GTCTGTCAAAAAA
* *
3730019 AATCAACTAGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTC
1 AATCAACTAGTATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTATTTTCAATTTC
3730083 CGTTTTTCAA
Statistics
Matches: 124, Mismatches: 10, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
73 1 0.01
74 38 0.31
76 25 0.20
77 25 0.20
79 35 0.28
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (77 bp):
AATCAACTAGTATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTATTTTCAATTTCTG
TCTGTCAAAAAA
Found at i:3730396 original size:72 final size:73
Alignment explanation
Indices: 3730287--3730459 Score: 217
Period size: 72 Copynumber: 2.4 Consensus size: 73
3730277 TTTTTATTTT
* * * * * * *
3730287 TCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TCAAGAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGATGAGGTAATCTCAATT
*
3730351 TTTGTGTT-
66 TCTGT-TTG
* **
3730359 TTAA-TTTCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGATGAGGTAATCTCAATT
1 TCAAGAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGATGAGGTAATCTCAATT
3730423 TCTGTTTG
66 TCTGTTTG
3730431 TCAAGAATCAACTCATATTGCGAGAGGTG
1 TCAAGAATCAACTCATATTGCGAGAGGTG
3730460 GGTTGAACCT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
71 2 0.02
72 61 0.72
73 22 0.26
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (73 bp):
TCAAGAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGATGAGGTAATCTCAATT
TCTGTTTG
Found at i:3730637 original size:87 final size:87
Alignment explanation
Indices: 3730490--3730822 Score: 463
Period size: 87 Copynumber: 3.8 Consensus size: 87
3730480 ACTTTTTCAA
* * *
3730490 AATCAGCTCATATTGCGAGAGGTGAGTTGAGTCTCAGGTCACGCCGAGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
3730555 CTTCATTATATGTTTTTGAAAG
66 TTTCATTATATGTTTTTGAAAG
*
3730577 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTT-TGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
3730641 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTA-TATGTTTTTGAAAG
* *
3730664 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* **
3730729 GTTTTTCAATT-TTTGTCTTTCAAAAG
64 G-TTTTC-ATTATATGT-TTTTGAAAG
* * *
3730755 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 --AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
3730820 GTT
64 GTT
3730823 GTCAAAAAAA
Statistics
Matches: 223, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
86 10 0.04
87 109 0.49
89 22 0.10
90 8 0.04
91 35 0.16
92 3 0.01
93 36 0.16
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (87 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATATGTTTTTGAAAG
Found at i:3730736 original size:14 final size:14
Alignment explanation
Indices: 3730717--3730751 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3730707 CGCCGAGGTA
3730717 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
3730731 TTTTCAATTTTTGT
1 TTTTCAATTTCTGT
*
3730745 CTTTCAA
1 TTTTCAA
3730752 AAGAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3730859 original size:74 final size:78
Alignment explanation
Indices: 3730732--3730893 Score: 215
Period size: 74 Copynumber: 2.1 Consensus size: 78
3730722 AATTTCTGTT
* * **
3730732 TTTCAATTTTTGTCTTTCAAAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTCAAAAGAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGCA
*
3730796 CACGCTGAGGTAA
66 CACGCCGAGGTAA
* *
3730809 TTTCAATTTCTGT-TGTC-AAA-AAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTC
1 TTTCAATTTCTGTCTGTCAAAAGAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGG-C
*
3730871 ACACGCCGAGGTAT
65 ACACGCCGAGGTAA
3730885 TTTCAATTT
1 TTTCAATTT
3730894 TCGTTTTTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
74 36 0.48
75 3 0.04
76 24 0.32
77 12 0.16
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (78 bp):
TTTCAATTTCTGTCTGTCAAAAGAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGCA
CACGCCGAGGTAA
Found at i:3731104 original size:811 final size:811
Alignment explanation
Indices: 3729682--3731700 Score: 3022
Period size: 811 Copynumber: 2.5 Consensus size: 811
3729672 CAATTTCTGT
* * *
3729682 TTGTCAAGAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGTCACGCCAATGTATTTTCA
1 TTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCA
*
3729747 ATTTCTGTCTTCATTATTATGTTTTTAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 ATTTCTGTCTTCATTA-TATGTTTTTAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
3729812 CAGGTCACGCCGAGGTATTTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGT
129 CAGGTCACGCCGAGGTATTTTCAA-TTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGT
*
3729877 ATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTCTTTCA---
193 ATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCATGT
3729939 -----AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
258 CTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
3729999 TCAATTTCTGTTGTCAAAAAAATCAACTAGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACG
323 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACG
*
3730064 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAT
388 CCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAT
3730129 AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTCAAAATCAACTCATAT
453 AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTCAAAATCAACTCATAT
*
3730194 TGCAAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTGACTCATATTGCGAGAG
518 TGCAAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTTAGTTTGACTCATATTGCGAGAG
3730259 GTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
583 GTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
3730324 TCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAG
648 TCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAG
3730389 TTCAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGA
713 TTCAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGA
*
3730454 GAGGTGGGTTGAACCT-T-T-TAATTTC-TACT-
778 GAGGTGAGTTGAACCTATCTGTAATTTCATACTG
* * * *
3730483 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGTCTCAGGTCACGCCGAGGTATTTTTAA
1 TTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
*
3730548 TTTCTGTCTTCATTATATGTTTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TTTCTGTCTTCATTATATGTTTTTAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
3730613 GGTCACGCCGAGGTATTTTCAATTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATT
131 GGTCACGCCGAGGTATTTTCAATTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATT
3730678 GCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTTT
196 GCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTC-A----T
3730743 GTCTTTCAAAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
256 GTCTTTCAAAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
3730808 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCAC
320 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCAC
3730873 ACGCCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTT-AAAAAAATCAACTCATATTGC
385 ACGCCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGC
3730937 GATAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTCAAAATCAACTCA
450 GATAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTCAAAATCAACTCA
3731002 TATTGCAAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTTAGTTTGACTCATATTGCGA
515 TATTGCAAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTTAGTTTGACTCATATTGCGA
3731067 GAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGA
580 GAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGA
3731132 GCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGT
645 GCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGT
*
3731197 GAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTG
710 GAGTTCAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTG
* *
3731262 CGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTG
775 CGAGAGGTGAGTTGAACCT------AT-CT---GTAATTTC-A-TACTG
* * *
3731311 TTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTA-T
1 TTGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATT
* * * ** * * *
3731375 TTCAATTTCCGTTTTTCAATT-TCTACCTTTCAAAAAAAT-TGACTCATATTGCGAGAGGTGAGT
61 TTCAATTTCTG-TCTTC-ATTATAT-GTTTTTAAAAGAATCAG-CTCATATTGCGAGAGGTGAGT
* * * * *
3731438 TGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTGTC---A--A--------AAA-AATC
122 TGAGCCTCAGGTCACGCCGAGGTATTTTCAATTT-TGTTTTCATTATTATGTTTTTGAAAGAATC
* *
3731489 AACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
186 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
* ** ** *
3731554 TTCA--------AAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACATGCTGA
251 TTCATGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * * * **
3731611 GGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
316 GGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAG
* *
3731676 G--ACACGCTGAGGTAATTTCAATTTT
380 GTCACACGCCGAGGTATTTTCAATTTT
3731701 TGTTGTCAAA
Statistics
Matches: 1122, Mismatches: 54, Indels: 79
0.89 0.04 0.06
Matches are distributed among these distances:
798 100 0.09
799 71 0.06
800 67 0.06
801 6 0.01
806 22 0.02
807 59 0.05
808 47 0.04
811 365 0.33
812 159 0.14
818 1 0.00
820 2 0.00
821 70 0.06
822 3 0.00
824 7 0.01
827 3 0.00
828 4 0.00
830 1 0.00
831 36 0.03
832 11 0.01
833 19 0.02
834 63 0.06
835 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (811 bp):
TTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
TTTCTGTCTTCATTATATGTTTTTAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGTCACGCCGAGGTATTTTCAATTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATT
GCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCATGTCTT
TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACGCCG
AGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGATAGA
TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTCAAAATCAACTCATATTGC
AAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTTAGTTTGACTCATATTGCGAGAGGTG
AGTTAAGCCTTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCG
GGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTC
AGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAG
GTGAGTTGAACCTATCTGTAATTTCATACTG
Found at i:3731526 original size:164 final size:152
Alignment explanation
Indices: 3731406--3731914 Score: 440
Period size: 153 Copynumber: 3.2 Consensus size: 152
3731396 TCTACCTTTC
** **
3731406 AAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATT
* *
3731471 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGG
66 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
*
3731536 TATTTTCAATTTCTGTTTTTCAA
131 TA-TTTCAATTTCCGTTTTTCAA
* ** ** *
3731559 AAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATT
* * * *
3731624 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAG
66 TCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAG
** *
3731687 GTAATTTCAATTTTTG-TTGTC--
130 GT-ATTTCAATTTCCGTTTTTCAA
* * * * ** *
3731708 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACATGCTGAGGTAATTTCAA
* *
3731773 TTTCTGTTTTTCAATTTCTGCATTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 TTTCTG----------T-TG----TC--AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * * * *
3731838 CT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTC--
112 CTCAGG-TCACACGCCGAGGTA-TTTCAATTTCCGTTTTTCAA
3731878 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3731915 TTTAGATCAC
Statistics
Matches: 295, Mismatches: 36, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
149 37 0.13
151 27 0.09
152 22 0.07
153 60 0.20
154 43 0.15
160 2 0.01
161 1 0.00
165 2 0.01
166 2 0.01
167 39 0.13
168 1 0.00
169 21 0.07
170 38 0.13
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (152 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATT
TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
TATTTCAATTTCCGTTTTTCAA
Found at i:3731593 original size:79 final size:77
Alignment explanation
Indices: 3731100--3731786 Score: 572
Period size: 74 Copynumber: 9.0 Consensus size: 77
3731090 TTTATTTTTC
* **
3731100 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GG-GGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
*
3731163 TTGTGTTTT----
66 CTGT-TTTTCAAA
** * * *
3731172 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGATGAGGTAATCTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
*
3731235 CTGTTTGTC--A
66 CTGTTTTTCAAA
* * *
3731245 AGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACATGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
*
3731308 CTG-TTGTCAAA
66 CTGTTTTTCAAA
* * * *
3731319 AAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTA-TTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
*
3731383 CCGTTTTTCAATTTCTA
66 CTGTTTTTCAA-----A
**** ** * * * * * * * * * *
3731400 CCTTTCAA-AAAAATTGACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACACTGAGGTAA
1 AAAATCAACTCATATTG-C-GAGA--G-GTGAGTTGAGCCTCAG-GTC---ACACGCTGAGGTAT
*
3731463 TTTCAATTTCTG-TTGTCAAA
57 TTTCAATTTCTGTTTTTCAAA
* * * * *
3731483 AAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
3731548 CTGTTTTTCAAAAA
66 CTGTTTTTC--AAA
* ** ** *
3731562 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCA--AAACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
3731625 CTGTTTTTCAAA
66 CTGTTTTTCAAA
*
3731637 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
* *
3731700 TTG-TTGTCAAA
66 CTGTTTTTCAAA
* * * **
3731711 AAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
3731776 CTGTTTTTCAA
66 CTGTTTTTCAA
3731787 TTTCTGCATT
Statistics
Matches: 493, Mismatches: 89, Indels: 61
0.77 0.14 0.09
Matches are distributed among these distances:
71 3 0.01
72 61 0.12
73 62 0.13
74 81 0.16
75 72 0.15
76 62 0.13
77 40 0.08
79 44 0.09
80 8 0.02
81 6 0.01
82 2 0.00
83 6 0.01
84 8 0.02
85 10 0.02
88 17 0.03
89 11 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAAA
Found at i:3731677 original size:228 final size:228
Alignment explanation
Indices: 3731387--3732162 Score: 818
Period size: 228 Copynumber: 3.2 Consensus size: 228
3731377 CAATTTCCGT
*** **
3731387 TTTTCAATTTCTACCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
3731452 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGC
66 CACTGAGGTAATTTCAATTTATGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
* *
3731517 CTTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGA
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGA
* ** * *
3731582 GAAATGAGTTGAGCCTCAAAACATGCTGAGGTA
196 GAAGTGAGTTGAGCCTCATCACGTGCTGAGCTA
3731615 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
3731680 CGCTGAGGTAATTTCAATTTTTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGC
66 CACTGAGGTAATTTCAATTTATGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
*
3731745 CTCAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCATTTCAAAAAAAAATC
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCTG----------T-T---TTTCAAAAAAAAATC
* *
3731810 AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTA
182 AACTCATATTGCGAGAAGTGAGTTGAGCC-T--CATCACGTGCTGAGCTA
* *
3731859 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTA-GATC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-C
* * * * *** * *
3731923 ACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAG
65 ACAC--TGAGGTA--ATTTCAATTTAT-GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
* * * ** * **
3731988 TTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAGATTCTGTTTTCAAAAAT
125 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCA-A--------AAAAAAAT
* *
3732053 TAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTA
181 CAACTCATATTGCGAGAAGTGAGTTGAGCCTCA--TCACGTGCTGAGCTA
*
3732103 TTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTC---TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
3732163 TTTTTAATTT
Statistics
Matches: 462, Mismatches: 47, Indels: 58
0.81 0.08 0.10
Matches are distributed among these distances:
228 153 0.33
235 5 0.01
236 1 0.00
238 2 0.00
239 2 0.00
242 41 0.09
243 4 0.01
244 131 0.28
245 1 0.00
246 7 0.02
247 14 0.03
248 40 0.09
249 61 0.13
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (228 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CACTGAGGTAATTTCAATTTATGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
CTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGA
GAAGTGAGTTGAGCCTCATCACGTGCTGAGCTA
Found at i:3731785 original size:14 final size:14
Alignment explanation
Indices: 3731766--3731792 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3731756 CGCCAAGGTA
3731766 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3731780 TTTTCAATTTCTG
1 TTTTCAATTTCTG
3731793 CATTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3731798 original size:14 final size:14
Alignment explanation
Indices: 3731767--3731800 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3731757 GCCAAGGTAT
**
3731767 TTTCAATTTCTGTT
1 TTTCAATTTCTGCA
3731781 TTTCAATTTCTGCA
1 TTTCAATTTCTGCA
3731795 TTTCAA
1 TTTCAA
3731801 AAAAAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCA
Found at i:3731861 original size:93 final size:93
Alignment explanation
Indices: 3731708--3731879 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
3731698 TTTTGTTGTC
* * *
3731708 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTCAA
3731773 TTTCTGTTTTTCAATTTCTGCATTTCAA
66 TTTCTGTTTTTCAATTTCTGCATTTCAA
* * * **
3731801 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCAAGCTATTTTCA
3731865 ATTTCTGTTTTTCAA
65 ATTTCTGTTTTTCAA
3731880 AAAAATCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTCAA
TTTCTGTTTTTCAATTTCTGCATTTCAA
Found at i:3731942 original size:79 final size:79
Alignment explanation
Indices: 3731779--3732373 Score: 314
Period size: 88 Copynumber: 7.2 Consensus size: 79
3731769 TCAATTTCTG
** * *
3731779 TTTTTCAATTTCTGCATTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGA
* *
3731844 TCACGCGCTGAGCTA-
64 TCACACGTTGAGCTAT
*
3731859 -TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATC
1 TTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
* *
3731923 ACACATTGAGGTAT
66 ACACGTTGAGCTAT
* * * * * * ** *
3731937 TTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAGTTGAGCCTCGGGTC
1 TTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
* * *
3732002 ACATGTCGAGGTAT
66 ACACGTTGAGCTAT
* * * *** * *
3732016 TTTCAAAATCTATTTTTCAGATTCTGTTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAG
1 TTT----TTC-A-ATTTCTG-TT-T-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* ** *
3732081 CCTTAGCTCACGTGCTGAGCTA-
57 CCTTAGATCACACGTTGAGCTAT
* *
3732103 -TTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTT
1 TTTTTCAATTTC---TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CT
* * *
3732167 TA-ATTTCTGCGAGAGTTGAGTTGAGT
60 TAGA--TC-AC-A-CGTTGAGCT-A-T
* * * *
3732193 CTTTT-AATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-T
1 TTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGAT
** * *
3732254 CACATATCGAGGTAT
65 CACACGTTGAGCTAT
* * *
3732269 TTTCAAAATCTGATTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTT-----T-TCAATTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
3732333 GCCTTGGCTCACGCGCTGAGCTA-
56 GCCTTAGATCACACGTTGAGCTAT
3732356 -TTTTCAATTTCTGTTTTT
1 TTTTTCAATTTCTGTTTTT
3732374 AATGCCTGTT
Statistics
Matches: 393, Mismatches: 81, Indels: 86
0.70 0.14 0.15
Matches are distributed among these distances:
76 6 0.02
77 52 0.13
78 5 0.01
79 89 0.23
80 18 0.05
81 34 0.09
82 6 0.02
83 11 0.03
84 34 0.09
85 9 0.02
86 6 0.02
87 19 0.05
88 94 0.24
90 6 0.02
91 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (79 bp):
TTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
ACACGTTGAGCTAT
Found at i:3732060 original size:244 final size:242
Alignment explanation
Indices: 3731606--3732373 Score: 896
Period size: 244 Copynumber: 3.1 Consensus size: 242
3731596 CTCAAAACAT
*
3731606 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * * * *
3731671 CTCAGGA-CACGC--TGAGGTA-ATTTCAATTTT-TGTTGTCAAAAAAATCAACTCGTATTGTGA
66 TTTA-GATCACACATTGAGGTATTTTTCAATTTTAT-TTTTCAAAAAAATCAACTCATATTGCGA
* * * * ** * *
3731731 GAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCAT
129 GAGGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAAGTTCTG--T
3731796 TTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
192 TTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
3731850 GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
3731915 TTTAGATCACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGA
66 TTTAGATCACACATTGAGGTA-TTTTTCAATTT-TATTTTTCAAAAAAATCAACTCATATTGCGA
* *
3731980 GATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTC-AGATTCTGTT
129 GAGGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAAG-TTCTG-T
* * * *
3732044 TTC-AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGT
192 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
3732094 GCTGAGCTATTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGCTATTTTCAATTTC---TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
* * *
3732159 GAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTATTTTTC--AAAAATCA
62 GAGC--TTTAGA--TC-AC-ACA-TTGAGGT-A-T-TTTTCAATTT-TATTTTTCAAAAAAATCA
* *
3732220 ACTCATATTGCGAGAGGTGAGTTGAACCTCCA-GTCACATATCGAGGTATTTTCAAAATCTGA-T
116 ACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGGTCACATGTCGAGGTATTTTCAAAATCT-ATT
**
3732283 TTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
179 TTTCAAGTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
3732347 GCTGAGCTATTTTCAATTTCTGTTTTT
1 GCTGAGCTATTTTCAATTTCTGTTTTT
3732374 AATGCCTGTT
Statistics
Matches: 453, Mismatches: 46, Indels: 44
0.83 0.08 0.08
Matches are distributed among these distances:
243 2 0.00
244 133 0.29
246 7 0.02
247 14 0.03
248 44 0.10
249 74 0.16
250 11 0.02
251 2 0.00
252 5 0.01
253 132 0.29
254 10 0.02
255 15 0.03
256 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (242 bp):
GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
TTTAGATCACACATTGAGGTATTTTTCAATTTTATTTTTCAAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAAGTTCTGTTTCA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
Found at i:3732180 original size:30 final size:30
Alignment explanation
Indices: 3732144--3732204 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
3732134 CAACTCATAT
3732144 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
3732174 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
3732204 T
1 T
3732205 ATTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.43
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:3732313 original size:253 final size:246
Alignment explanation
Indices: 3731606--3732373 Score: 802
Period size: 253 Copynumber: 3.1 Consensus size: 246
3731596 CTCAAAACAT
* *
3731606 GCTGAGGTATTTTCAATTTC--TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 GCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * * **
3731669 GCCTCAGGA-CACGC--TGAGGTA--ATTTCAATTT-T-TGTTGTCAAAAAAATCAACTCGTATT
66 GCTTTA-GATCACACATTGAGGTATCTTTTCAATTTATAT-TTTTC-AAAAAATCAACTCACATT
* * * *** * ** *
3731727 GTGAGAGGCGAGTTGAGCCT-CAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCA-ATTT
128 GCGAGAGGTGAGTTGAACCTCCA-GTCACATATCGAGGTATTTTCAAAATCTATTTTTCAGA-TT
** *
3731790 CTGCATTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
191 AAG-TTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
3731850 GCTGAGCTATTTTCAATTTC--TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 GCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
3731913 GCTTTAGATCACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGC
66 GCTTTAGATCACACATTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGC
* * ** * **
3731978 GAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAGATTCTGT
130 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTATTTTTCAGATTAAGT
* * * *
3732043 TTTC-AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGT
195 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
3732094 GCTGAGCTATTTTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGCTATTTTCAATTTC-TTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
* * * *
3732159 GAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTATTTTTC-AAAAATCAA
64 GAGC--TTTAGA--TC-AC-ACA-TTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAA
*
3732221 CTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGA-TTT
120 CTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCT-ATTTT
3732285 TCA-AGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
184 TCAGA-TTAAGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
3732347 GCTGAGCTATTTTCAATTTCTGTTTTT
1 GCTGAGCTATTTTCAATTTCTTTTTTT
3732374 AATGCCTGTT
Statistics
Matches: 452, Mismatches: 47, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
243 2 0.00
244 133 0.29
246 7 0.02
247 14 0.03
248 43 0.10
249 73 0.16
250 6 0.01
251 2 0.00
252 12 0.03
253 134 0.30
254 7 0.02
255 14 0.03
256 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (246 bp):
GCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCTTTAGATCACACATTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCG
AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTATTTTTCAGATTAAGTT
TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
Found at i:3733066 original size:24 final size:25
Alignment explanation
Indices: 3733032--3733104 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
3733022 CCCTCCCAAA
*
3733032 AAAAAATCTAA-CCAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
3733056 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCCAAAAA-AAAAAG
3733082 -AAAAACCTAACCCAAAAAAAAAA
1 AAAAAACCTAACCCAAAAAAAAAA
3733105 ACCAAGAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 15 0.33
25 25 0.54
26 6 0.13
ACGTcount: A:0.73, C:0.18, G:0.04, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCCAAAAAAAAAAG
Found at i:3734708 original size:3 final size:3
Alignment explanation
Indices: 3734702--3734825 Score: 87
Period size: 3 Copynumber: 40.3 Consensus size: 3
3734692 AATAATAGCC
* **
3734702 ATA ATA ATA GA-A ATA ATA GTA ATA ATA A-A ATA ATA ACG ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
3734746 ATAA ATCGA ATA ATA TTA ATA ATA ATA ATA ATA GA-A ATA ATA ATA AT-
1 AT-A AT--A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
3734793 ATA AGT- ATA TATGA AAA ATA ATA ATA ATG ATA A
1 ATA A-TA ATA -AT-A ATA ATA ATA ATA ATA ATA A
3734826 CTAAGATAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
2 7 0.07
3 76 0.79
4 9 0.09
5 4 0.04
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3739885 original size:33 final size:33
Alignment explanation
Indices: 3739848--3739914 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3739838 ACGTTTTTTT
* * *
3739848 GTATCTTTTCTTTTTGTTTGACCACCCCGTTGG
1 GTATCTTGTCCTTTTGTGTGACCACCCCGTTGG
*
3739881 GTATCTTGTCCTTTTGTGTGACCACCCTGTTGG
1 GTATCTTGTCCTTTTGTGTGACCACCCCGTTGG
3739914 G
1 G
3739915 GCTTTCTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (33 bp):
GTATCTTGTCCTTTTGTGTGACCACCCCGTTGG
Found at i:3745406 original size:131 final size:130
Alignment explanation
Indices: 3745165--3745640 Score: 528
Period size: 131 Copynumber: 3.6 Consensus size: 130
3745155 TTATAATCAG
* ** *
3745165 TCATGTTTTCTAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGT
1 TCATGTTTCCTAAAAAT-CTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCG-GGAATCGT
* * * * *
3745230 GCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAATTTC
64 GCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTC
*
3745295 AT
129 AC
** *
3745297 TCATGTTTCCTAAAAACTCTTTAAAACGAAGGTAATACTCGATGTTTGGCAATTTGGGAATCGTG
1 TCATGTTTCCTAAAAA-TCTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGAATCGTG
* * *
3745362 CCTTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCA
65 CCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCA
3745427 C
130 C
* * * *
3745428 CCATGTCTT--TAAAGATTCTATAAAACGAAGGTAATGTTTGATGTTTGGCAATTCGGGGAATCG
1 TCATGT-TTCCTAAA-AATCTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTC-GGGAATCG
* * * * *
3745491 TGCCCTATCGTGCTGGGTTGCGATTTCCTGTTGGTTCAAAATAATTGAATATCCCCATTAGAATT
63 TGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATAT-CCCTTTGGAATT
3745556 TCAC
127 TCAC
* * ** ** * * * *
3745560 TCATGTTTCTTAAAAAT-TCTAAAAATAAGACAATGCTCGATGTTTAGAAATTCGAGGAATTGTG
1 TCATGTTTCCTAAAAATCTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCG-GGAATCGTG
3745624 CCCTA-CTGTGCTGGGTT
65 CCCTATC-GTGCTGGGTT
3745641 TCGGTTTTAC
Statistics
Matches: 292, Mismatches: 43, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
130 39 0.13
131 179 0.61
132 69 0.24
133 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (130 bp):
TCATGTTTCCTAAAAATCTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGAATCGTGC
CCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCAC
Found at i:3747241 original size:18 final size:18
Alignment explanation
Indices: 3747205--3747255 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
3747195 TGTTGTAATA
3747205 CTATTTATATATTTAAATA-T
1 CTATTTA-AT-TTT-AATAGT
3747225 CTATTTCAATTTTAATAGT
1 CTATTT-AATTTTAATAGT
*
3747244 TTATTTAATTTT
1 CTATTTAATTTT
3747256 TAAAATTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 9 0.32
20 8 0.29
21 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (18 bp):
CTATTTAATTTTAATAGT
Found at i:3749409 original size:49 final size:49
Alignment explanation
Indices: 3749337--3749523 Score: 245
Period size: 49 Copynumber: 3.8 Consensus size: 49
3749327 TGAGGTCACG
* *
3749337 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
3749386 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT-GGTCGCA
*
3749437 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
3749486 TGTGTAGTACTAAGTGCAGGCTACTA--TGCTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGATA
3749524 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 9 0.08
49 62 0.52
50 9 0.08
51 37 0.31
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:3749505 original size:100 final size:99
Alignment explanation
Indices: 3749332--3749518 Score: 338
Period size: 100 Copynumber: 1.9 Consensus size: 99
3749322 TATTGTGAGG
* * *
3749332 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
3749397 AAGTGCAGGCTACTATGCGTACCCAATAACTTCGA
66 AAGTGCAGGCTACTATGC-TACCCAATAACTTCGA
3749432 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
3749497 AAGTGCAGGCTACTATGCTACC
66 AAGTGCAGGCTACTATGCTACC
3749519 AGATAGCTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
99 4 0.05
100 80 0.95
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCTACCCAATAACTTCGA
Found at i:3761357 original size:18 final size:16
Alignment explanation
Indices: 3761334--3761374 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
3761324 CATCCAATAA
3761334 AAATAAAATATTATAAAC
1 AAATAAAATATT-T-AAC
3761352 AAAT-AAATATTTAAC
1 AAATAAAATATTTAAC
3761367 -AATAAAAT
1 AAATAAAAT
3761375 GTGTTATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 1 0.05
17 7 0.32
18 4 0.18
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATATTTAAC
Found at i:3765644 original size:23 final size:21
Alignment explanation
Indices: 3765603--3765644 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
3765593 AGTGAAATGG
*
3765603 ATGAATTTTTTTAATGGCAAA
1 ATGAATTTTTTTAAAGGCAAA
3765624 ATGAATTTTCTTTTAAAGGCA
1 ATGAA-TTT-TTTTAAAGGCA
3765645 CAATCAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (21 bp):
ATGAATTTTTTTAAAGGCAAA
Found at i:3766944 original size:22 final size:22
Alignment explanation
Indices: 3766927--3766972 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
3766917 AAGAGGGGGG
3766927 ATCGATGGTATTTTGAGGAAGA
1 ATCGATGGTATTTTGAGGAAGA
* *
3766949 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGA-AGA
3766972 A
1 A
3766973 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (22 bp):
ATCGATGGTATTTTGAGGAAGA
Found at i:3766978 original size:23 final size:22
Alignment explanation
Indices: 3766934--3766983 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
3766924 GGGATCGATG
**
3766934 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
3766956 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
3766979 GTATT
1 GTATT
3766984 AGAGGGAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:3767713 original size:79 final size:79
Alignment explanation
Indices: 3767590--3767744 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 79
3767580 ATAAAGTATG
*
3767590 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGGTTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAAT-AAAACAAAA
3767655 TAGCATGGGGGAATA
65 TAGCATGGGGGAATA
* * *
3767670 GTTTTAATTAATAAT-AAAATAAAATAGTATGGGGGAGTAGTTTTAATTAATAATAAAACAAAGT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
3767734 AGCATGGGGGA
66 AGCATGGGGGA
3767745 GTGGAATCAA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 20 0.28
79 36 0.51
80 15 0.21
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (79 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
AGCATGGGGGAATA
Found at i:3767746 original size:39 final size:40
Alignment explanation
Indices: 3767590--3767744 Score: 242
Period size: 39 Copynumber: 3.9 Consensus size: 40
3767580 ATAAAGTATG
* *
3767590 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGCATGGGGGAATA
3767630 GTTTTAATTAATAATAAAAACAAAATAGCATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGCATGGGGGAATA
* * *
3767670 GTTTTAATTAATAAT-AAAATAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGCATGGGGGAATA
*
3767709 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGCATGGGGGA
3767745 GTGGAATCAA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 54 0.50
40 53 0.50
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGCATGGGGGAATA
Found at i:3775795 original size:29 final size:31
Alignment explanation
Indices: 3775745--3775811 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
3775735 TATTAATTTT
**
3775745 AAAATAACATTAATTTACTTAT-TTCAAATA
1 AAAATAACATTAATGCACTTATCTTCAAATA
* * *
3775775 AAAATAA-ATTAATGCATTTATCTTCAATTT
1 AAAATAACATTAATGCACTTATCTTCAAATA
3775805 AAAATAA
1 AAAATAA
3775812 TTTTTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (31 bp):
AAAATAACATTAATGCACTTATCTTCAAATA
Found at i:3780944 original size:21 final size:21
Alignment explanation
Indices: 3780918--3780960 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3780908 AATTTTAAGC
3780918 ACCAATTAGAAACAAAACCCT
1 ACCAATTAGAAACAAAACCCT
3780939 ACCAATTAGAAACAAAACCCT
1 ACCAATTAGAAACAAAACCCT
3780960 A
1 A
3780961 TTGTATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (21 bp):
ACCAATTAGAAACAAAACCCT
Found at i:3784463 original size:21 final size:20
Alignment explanation
Indices: 3784419--3784468 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
3784409 TATTACGTTT
*
3784419 ATTTTTTTAAATTAAGAATT
1 ATTTTTTTAAATTAAGAATG
* *
3784439 ATTTTTTTAATTTCATGAATG
1 ATTTTTTTAAATT-AAGAATG
*
3784460 ATTTATTTA
1 ATTTTTTTA
3784469 TTTTATTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTTTTTAAATTAAGAATG
Found at i:3794484 original size:78 final size:78
Alignment explanation
Indices: 3794350--3794506 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
3794340 ATGCAAGTTT
* * * * *
3794350 CGAGTGTTGCTGTCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACCATTGCGAATTCAG
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
3794415 TCCTCATTAACCC
66 TCCTCATTAACCC
* * * *
3794428 CGAGTGTCGCTGCCTTATCAATGGAAGCTAAGCCAATTAAGTTAGAATCACAATTGCAAATTCAC
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
**
3794493 TCCTTGTTAACCC
66 TCCTCATTAACCC
3794506 C
1 C
3794507 TTGACTAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
TCCTCATTAACCC
Found at i:3794692 original size:34 final size:34
Alignment explanation
Indices: 3794649--3794716 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
3794639 TTAAATGTAG
3794649 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
3794683 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
3794717 GAATTTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
Found at i:3796410 original size:93 final size:92
Alignment explanation
Indices: 3796278--3796472 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
3796268 TTGATTTTAG
* *
3796278 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
3796342 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
3796370 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
3796435 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
3796463 CAAATTCATA
1 TAAATTCATA
3796473 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:3796530 original size:17 final size:17
Alignment explanation
Indices: 3796505--3796538 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3796495 ATAATTTTAA
*
3796505 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
3796522 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
3796539 TTGATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:3796547 original size:17 final size:18
Alignment explanation
Indices: 3796509--3796548 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
3796499 TTTTAAATTT
*
3796509 TATTAAATCATATATTTA
1 TATTAAATCATATATTGA
3796527 -ATTAAATCATAT-TTGA
1 TATTAAATCATATATTGA
3796543 TATTAA
1 TATTAA
3796549 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTGA
Found at i:3796663 original size:15 final size:15
Alignment explanation
Indices: 3796628--3796762 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
3796618 TTAAGAATTT
*
3796628 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3796642 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
3796656 TATTTAATAATAAT-
1 TATTTAATTATAATA
3796670 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
3796684 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
3796699 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
3796721 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3796735 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
3796749 TATTTAATAATAAT
1 TATTTAATTATAAT
3796763 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:3796672 original size:120 final size:119
Alignment explanation
Indices: 3796504--3796722 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
3796494 AATAATTTTA
* * *
3796504 AATTTTATTAAATCATATATTTAATTAAATCATATTTGATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
3796567 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
3796623 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
3796687 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
3796723 TTAAATTATA
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 23 0.25
120 63 0.69
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:3796751 original size:16 final size:16
Alignment explanation
Indices: 3796730--3796771 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3796720 ATATTAAATT
*
3796730 ATATATTTTAATTATA
1 ATATATTTTAATAATA
3796746 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
3796761 AT-TATGTTTAA
1 ATATAT-TTTAA
3796772 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:3796879 original size:154 final size:156
Alignment explanation
Indices: 3796721--3797018 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
3796711 AGTAAATTCA
*
3796721 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
3796786 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
3796849 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
3796875 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
3796940 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
3797005 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
3797019 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:3796899 original size:18 final size:17
Alignment explanation
Indices: 3796871--3796905 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3796861 ATTATTAAGA
*
3796871 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
3796888 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
3796906 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:3797159 original size:16 final size:16
Alignment explanation
Indices: 3797138--3797176 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3797128 TTGATTTGCT
*
3797138 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
3797154 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
3797170 ATTACAC
1 ATTACAC
3797177 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:3797177 original size:16 final size:16
Alignment explanation
Indices: 3797151--3797207 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
3797141 ACACAGCTTT
* *
3797151 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
3797167 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
3797183 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
3797199 TCCAATACA
1 TCCAATACA
3797208 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:3797527 original size:20 final size:20
Alignment explanation
Indices: 3797485--3797525 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
3797475 CAGAAAATAA
3797485 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3797505 TTTCTGG-AAATGATTTA-T
1 TTTCTGGAAAATGATTTACT
3797523 TTT
1 TTT
3797526 TTTAGTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 10 0.48
20 7 0.33
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3797673 original size:36 final size:36
Alignment explanation
Indices: 3797602--3797673 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
3797592 TTGAAAAAGC
*
3797602 TATTTTTACATATATTAATAAATTTATATTTTAAAT
1 TATTTTTACATATATTAATAAATTTATATTATAAAT
3797638 TATTTTTACATATATTGCAAT-AATTTAT-TTATAAAT
1 TATTTTTACATATATT--AATAAATTTATATTATAAAT
3797674 AAATAAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 23 0.70
37 7 0.21
38 3 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (36 bp):
TATTTTTACATATATTAATAAATTTATATTATAAAT
Found at i:3814272 original size:21 final size:21
Alignment explanation
Indices: 3814234--3814273 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3814224 AAATGTATAA
* *
3814234 ATTAAATTAAAGACAAAAAAT
1 ATTAAAATAAAAACAAAAAAT
*
3814255 ATTAAAATAAAAATAAAAA
1 ATTAAAATAAAAACAAAAA
3814274 TGGCTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (21 bp):
ATTAAAATAAAAACAAAAAAT
Found at i:3818814 original size:29 final size:30
Alignment explanation
Indices: 3818767--3818825 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
3818757 TTAAGTTTAA
*
3818767 TGTGCAATTTTATACATG-AATGTTGATTT
1 TGTGCAATTTCATACATGAAATGTTGATTT
* * *
3818796 TGTGTAATTTCATATATGAAATTTTGATTT
1 TGTGCAATTTCATACATGAAATGTTGATTT
3818826 GATTCAGTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (30 bp):
TGTGCAATTTCATACATGAAATGTTGATTT
Found at i:3820266 original size:3 final size:3
Alignment explanation
Indices: 3820258--3820284 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3820248 TTTAGCTCAT
3820258 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
3820285 AGGATATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3820711 original size:221 final size:221
Alignment explanation
Indices: 3820328--3820994 Score: 1325
Period size: 221 Copynumber: 3.0 Consensus size: 221
3820318 TTCTATCAAG
3820328 ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
1 ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
3820393 TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
66 TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
3820458 CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
131 CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
3820523 GGAGAAAACATAATTTTCAATTGCCA
196 GGAGAAAACATAATTTTCAATTGCCA
3820549 ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
1 ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
3820614 TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
66 TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
3820679 CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
131 CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
3820744 GGAGAAAACATAATTTTCAATTGCCA
196 GGAGAAAACATAATTTTCAATTGCCA
3820770 ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
1 ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
3820835 TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
66 TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
3820900 CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
131 CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
*
3820965 GGAGAAAACATAATTTTCAATTGCCT
196 GGAGAAAACATAATTTTCAATTGCCA
3820991 ACTT
1 ACTT
3820995 CTTCTAACCT
Statistics
Matches: 445, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 445 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (221 bp):
ACTTACACCTCAACAGGGAGTAAGACTGCACCTAACCACTTCGACCTTTGATATCTTGTAAGTTT
TGCCCAACAACACAAATATTACCCATCACATATCAAAAACTACGTTACGCGACTTTATTTGATTG
CCAACCAATCAAAAGGGAGCATGTGCTTTAAGAGTGTCTTCTTTATTTATCCCTTTTAAGTCAAT
GGAGAAAACATAATTTTCAATTGCCA
Found at i:3824879 original size:62 final size:63
Alignment explanation
Indices: 3824804--3824929 Score: 236
Period size: 62 Copynumber: 2.0 Consensus size: 63
3824794 AATATAGGGA
3824804 TTAAATCCACAACTTGACAAAAATTGACAAAAAAATAT-AAAATTGAGGACTAAAAATATTAT
1 TTAAATCCACAACTTGACAAAAATTGACAAAAAAATATAAAAATTGAGGACTAAAAATATTAT
*
3824866 TTAAATCCACAACTTGACAAAAATTGACAAAAAAATATAAAAATTGAGGACTAAAAATTTTAT
1 TTAAATCCACAACTTGACAAAAATTGACAAAAAAATATAAAAATTGAGGACTAAAAATATTAT
3824929 T
1 T
3824930 ATACCAACTA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 38 0.61
63 24 0.39
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (63 bp):
TTAAATCCACAACTTGACAAAAATTGACAAAAAAATATAAAAATTGAGGACTAAAAATATTAT
Found at i:3847458 original size:4 final size:4
Alignment explanation
Indices: 3847449--3847475 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3847439 TTGTTTATAA
3847449 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
3847476 ACCCCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:3847882 original size:18 final size:18
Alignment explanation
Indices: 3847841--3847875 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3847831 TACATATCTT
3847841 GTTATTATTTACTTTAAA
1 GTTATTATTTACTTTAAA
3847859 GTTATT-TTTACTATTAA
1 GTTATTATTTACT-TTAA
3847876 TATTATTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
GTTATTATTTACTTTAAA
Found at i:3848113 original size:47 final size:47
Alignment explanation
Indices: 3848045--3848140 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 47
3848035 GGTTTTATTC
* * *
3848045 TTGAGTCTCAGATTTAGTTCTTCTCCTATTCATATTTGTATTTTTAT
1 TTGAGTCTCAAATTTAGTTCTTCTCCCATTCACATTTGTATTTTTAT
3848092 TTGAGTCTCAAATTT-GATTCTTCTCCCATTCACATTTGTATTTTTAT
1 TTGAGTCTCAAATTTAG-TTCTTCTCCCATTCACATTTGTATTTTTAT
3848139 TT
1 TT
3848141 CATGTTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 44 0.98
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (47 bp):
TTGAGTCTCAAATTTAGTTCTTCTCCCATTCACATTTGTATTTTTAT
Found at i:3848167 original size:12 final size:12
Alignment explanation
Indices: 3848151--3848185 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3848141 CATGTTTTTG
3848151 ATTTTTT-TTAA
1 ATTTTTTATTAA
*
3848162 ATTTTTAATTAA
1 ATTTTTTATTAA
3848174 ATTTTTTATTAA
1 ATTTTTTATTAA
3848186 TAAATATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTTTTATTAA
Found at i:3848197 original size:15 final size:15
Alignment explanation
Indices: 3848179--3848216 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3848169 ATTAAATTTT
3848179 TTATTAATAAAT-ATG
1 TTATTAATAAATGA-G
*
3848194 TTATAAATAAATGAG
1 TTATTAATAAATGAG
3848209 TTATTAAT
1 TTATTAAT
3848217 TAAGAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
TTATTAATAAATGAG
Found at i:3849617 original size:31 final size:31
Alignment explanation
Indices: 3849576--3849636 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
3849566 ACTAAATCAA
* * *
3849576 AATTAGAGTTTTAAGTATATATTTGAACTAT
1 AATTAAAGTTTCAAGTATATAATTGAACTAT
* *
3849607 AATTAAAGTTTCACGTATATAATTGTACTA
1 AATTAAAGTTTCAAGTATATAATTGAACTA
3849637 AAATAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (31 bp):
AATTAAAGTTTCAAGTATATAATTGAACTAT
Found at i:3850238 original size:11 final size:12
Alignment explanation
Indices: 3850214--3850245 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
3850204 TTTTTTAAAA
3850214 TTAAAAATATTT
1 TTAAAAATATTT
3850226 TTAAAAATATTT
1 TTAAAAATATTT
3850238 TTAAAAAT
1 TTAAAAAT
3850246 TAAAATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAAAATATTT
Found at i:3854424 original size:9 final size:9
Alignment explanation
Indices: 3854412--3854437 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3854402 TTCATGTTAT
3854412 TTTTTAAAA
1 TTTTTAAAA
3854421 TTTTTAAAA
1 TTTTTAAAA
3854430 TTTTTAAA
1 TTTTTAAA
3854438 TTATTTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:3859126 original size:113 final size:113
Alignment explanation
Indices: 3858928--3859481 Score: 892
Period size: 113 Copynumber: 4.9 Consensus size: 113
3858918 CAATAAGCAA
* * *
3858928 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
3858993 GTGGCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
3859041 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
3859106 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
3859154 TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
*
3859219 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * **
3859268 TAGCGGCGTTTTTAAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTGGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTT-GTGAGCTT
* *
3859333 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
3859383 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
3859448 CGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
3859482 AAAAAACCTA
Statistics
Matches: 411, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
113 159 0.39
114 157 0.38
115 95 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:3859322 original size:227 final size:228
Alignment explanation
Indices: 3858928--3859481 Score: 889
Period size: 227 Copynumber: 2.4 Consensus size: 228
3858918 CAATAAGCAA
* ** *
3858928 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
3858993 GTGGCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGA
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAGA
*
3859058 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTT-GTGAGCTTT-GTGGATTTAGCGGCA
131 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGCA
*
3859121 TTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
196 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
*
3859154 TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGGAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
3859219 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAG
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAG
* * **
3859284 ATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGC
130 AAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGC
*
3859349 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
195 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
*
3859383 TAGCGGCGTTTTTG-GGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGG-AAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
* * *
3859447 TCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
3859482 AAAAAACCTA
Statistics
Matches: 303, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
226 23 0.08
227 134 0.44
228 48 0.16
229 98 0.32
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (228 bp):
TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAGA
AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGCA
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
Found at i:3859462 original size:73 final size:73
Alignment explanation
Indices: 3859381--3859539 Score: 237
Period size: 73 Copynumber: 2.2 Consensus size: 73
3859371 TGCTCAGGGC
* * *
3859381 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
3859446 TTCGGGGA
66 TTCGGGGA
* * * * *
3859454 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
3859519 TTCGGGGA
66 TTCGGGGA
*
3859527 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
3859540 AATTGATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:3859924 original size:17 final size:17
Alignment explanation
Indices: 3859893--3859936 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
3859883 TAGGGAGTAT
3859893 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
3859908 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
3859925 TTATGGTTTAAT
1 TTATGGATTAAT
3859937 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:3860247 original size:14 final size:15
Alignment explanation
Indices: 3860217--3860254 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
3860207 CTACTACATA
3860217 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
3860232 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
3860246 TATGG-TTTA
1 TATGGATTTA
3860255 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:3860329 original size:14 final size:14
Alignment explanation
Indices: 3860284--3860332 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
3860274 GATTTAAGGT
3860284 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
3860298 TTTAGGGGTT-AGACG
1 -TTAGGGGTTAAGA-G
*
3860313 TTAGTGGTTAAGAG
1 TTAGGGGTTAAGAG
3860327 TTAGGG
1 TTAGGG
3860333 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Done.