Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 316 of 410
Found at i:98132670 original size:29 final size:29
Alignment explanation
Indices: 98132638--98132773 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
98132628 ATACCCTTCG
** * *
98132638 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
98132667 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
98132696 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
98132725 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
98132754 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
98132774 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:98132765 original size:58 final size:58
Alignment explanation
Indices: 98132613--98132772 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
98132603 AATTTAAGCC
* *** * * ** * *
98132613 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
98132671 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
98132729 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
98132773 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:98142589 original size:29 final size:29
Alignment explanation
Indices: 98142557--98142692 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
98142547 ATACCCTTCG
** * *
98142557 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
98142586 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
98142615 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
98142644 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
98142673 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
98142693 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:98142684 original size:58 final size:58
Alignment explanation
Indices: 98142532--98142691 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
98142522 AATTTAAGCC
* *** * * ** * *
98142532 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
98142590 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
98142648 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
98142692 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:98144612 original size:29 final size:29
Alignment explanation
Indices: 98144580--98144714 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
98144570 ATACCCTCCG
** * *
98144580 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
98144609 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
98144638 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
98144667 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
98144696 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
98144715 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:98144647 original size:58 final size:58
Alignment explanation
Indices: 98144526--98144715 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
98144516 TACTCGATTT
* * * *** *
98144526 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
98144584 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
98144642 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
98144700 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
98144716 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:98152598 original size:29 final size:29
Alignment explanation
Indices: 98152574--98152696 Score: 165
Period size: 29 Copynumber: 4.2 Consensus size: 29
98152564 TCGCACACCC
* * * *
98152574 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATATATTTCCAGCATGCACACTT
* *
98152603 AGTGTCATATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
* *
98152632 AGTGCCTTATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
98152661 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
98152690 AGTGCCA
1 AGTGCCA
98152697 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:98156858 original size:27 final size:27
Alignment explanation
Indices: 98156828--98156880 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
98156818 AGGGCAAAAT
* * *
98156828 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
98156855 GGTAATTTTACCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
98156881 TAGTAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:98156903 original size:27 final size:27
Alignment explanation
Indices: 98156873--98157026 Score: 229
Period size: 27 Copynumber: 5.7 Consensus size: 27
98156863 TACCCTACAA
* *
98156873 GGGTATTTTAGTAATTTTGCAAACCAT
1 GGGTATTTTGGTAATTTTGCAAACCAG
* *
98156900 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGCAAACCAG
98156927 GGGTATTTTGGTAATTTTGCAAACCAG
1 GGGTATTTTGGTAATTTTGCAAACCAG
*
98156954 GGATATTTTGGTAATTTTGCAAACCAG
1 GGGTATTTTGGTAATTTTGCAAACCAG
* *
98156981 GGGTATTTTGGTAGTTTTAC-AACCTAG
1 GGGTATTTTGGTAATTTTGCAAACC-AG
98157008 GGGTATTTTGGTAATTTTG
1 GGGTATTTTGGTAATTTTG
98157027 TAAATCGAGG
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.04
27 110 0.96
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGCAAACCAG
Found at i:98156904 original size:54 final size:53
Alignment explanation
Indices: 98156846--98157025 Score: 202
Period size: 54 Copynumber: 3.3 Consensus size: 53
98156836 TACCTTATAG
* **
98156846 GGGTATTTCGGTAATTTTACCCTAC-AAGGGTATTTTAGTAATTTTGCAAACCA
1 GGGTATTTTGGTAATTTTA-CAAACTAAGGGTATTTTAGTAATTTTGCAAACCA
* *
98156899 TGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCAAACCA
1 -GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGCAAACCA
* * * * * *
98156953 GGGATATTTTGGTAATTTTGCAAACCAGGGGTATTTTGGTAGTTTTAC-AACCTA
1 GGG-TATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGCAAACC-A
98157007 GGGGTATTTTGGTAATTTT
1 -GGGTATTTTGGTAATTTT
98157026 GTAAATCGAG
Statistics
Matches: 113, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
53 10 0.09
54 100 0.88
55 3 0.03
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGCAAACCA
Found at i:98157026 original size:81 final size:80
Alignment explanation
Indices: 98156843--98157026 Score: 269
Period size: 81 Copynumber: 2.3 Consensus size: 80
98156833 TTCTACCTTA
* * ** *
98156843 TAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTTAGTAATTTTGCAAACCATGGGTATTT
1 TAGGGGTATTTTGGTAATTTT-GCAAACAAGGGTATTTTAGTAATTTTGCAAACCAGGGGTATTT
98156908 TGGTAATTTTACAAAC
65 TGGTAATTTTACAAAC
* *
98156924 TAGGGGTATTTTGGTAATTTTGCAAACCAGGGATATTTTGGTAATTTTGCAAACCAGGGGTATTT
1 TAGGGGTATTTTGGTAATTTTGCAAACAAGGG-TATTTTAGTAATTTTGCAAACCAGGGGTATTT
* *
98156989 TGGTAGTTTTACAACC
65 TGGTAATTTTACAAAC
98157005 TAGGGGTATTTTGGTAATTTTG
1 TAGGGGTATTTTGGTAATTTTG
98157027 TAAATCGAGG
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 7 0.08
81 86 0.92
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.40
Consensus pattern (80 bp):
TAGGGGTATTTTGGTAATTTTGCAAACAAGGGTATTTTAGTAATTTTGCAAACCAGGGGTATTTT
GGTAATTTTACAAAC
Found at i:98157049 original size:27 final size:27
Alignment explanation
Indices: 98157017--98157248 Score: 277
Period size: 27 Copynumber: 8.6 Consensus size: 27
98157007 GGGGTATTTT
*
98157017 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
98157044 GATAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
98157071 AGTAATTCTGTAAATTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
98157098 GGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
98157125 GGTAATTCTGTACA-CTGAGGGTAAAAC
1 GGTAATTCTGTAAATC-GAGGGTAAAAC
* *
98157152 GGTAATTCTATAAATCAAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* **
98157179 GGTAATTTTAAAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
98157206 GATAATTCTGTAAATCCAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
98157233 GGTAATTCTGTAAATC
1 GGTAATTCTGTAAATC
98157249 AGGAGTACTT
Statistics
Matches: 176, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 174 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:98157050 original size:81 final size:81
Alignment explanation
Indices: 98156884--98157050 Score: 228
Period size: 81 Copynumber: 2.1 Consensus size: 81
98156874 GGTATTTTAG
*
98156884 TAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCAA
1 TAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCAA
**** *
98156949 ACCAGGGATATTTTGG
66 ACCAGGGATAAAACGA
* * *
98156965 TAATTTTGCAAACCAGGGGTATTTTGGTAGTTTTACAACCTAGGGGTATTTTGGTAATTTTGTAA
1 TAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCAA
*
98157030 ATCGAGGG-TAAAACGA
66 A-CCAGGGATAAAACGA
98157046 TAATT
1 TAATT
98157051 CTATAAATTG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 70 0.93
82 5 0.07
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (81 bp):
TAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCAA
ACCAGGGATAAAACGA
Found at i:98157093 original size:81 final size:81
Alignment explanation
Indices: 98157016--98157247 Score: 329
Period size: 81 Copynumber: 2.9 Consensus size: 81
98157006 AGGGGTATTT
* *
98157016 TGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTG
*
98157081 TAAATTGAGGGTAAAA
66 TAAATTAAGGGTAAAA
* * * * * *
98157097 TGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTACACTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTG
*
98157162 TAAATCAAGGGTAAAA
66 TAAATTAAGGGTAAAA
* ** **
98157178 CGGTAATTTTAAAAATCGAGGGTAAAACGATAATTCTGTAAATCCAGGGTAAAATGGTAATTCTG
1 TGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTG
98157243 TAAAT
66 TAAAT
98157248 CAGGAGTACT
Statistics
Matches: 130, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 130 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
TGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTG
TAAATTAAGGGTAAAA
Found at i:98157264 original size:81 final size:80
Alignment explanation
Indices: 98157016--98157280 Score: 316
Period size: 81 Copynumber: 3.3 Consensus size: 80
98157006 AGGGGTATTT
* * * *
98157016 TGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
*
98157081 TAAATTGAGGGTAAAA
66 TAAA-TCAGGGTAAAA
* * * * *
98157097 TGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTACA-CTGAGGGTAAAACGGTAATTCT
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGTAAAATGGTAATTCT
*
98157161 ATAAATCAAGGGTAAAA
65 GTAAATC-AGGGTAAAA
* * *
98157178 CGGTAATTTTAAAAATCGAGGGTAAAACGATAATTCTGTAAATCCAGGGTAAAATGGTAATTCTG
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
***
98157243 TAAATCAGGAGTACTT
66 TAAATCAGG-GTAAAA
* *
98157259 TGGTAATTTTACAAGTCGAGGG
1 TGGTAATTTTATAAATCGAGGG
98157281 CATTTCAGTA
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
80 4 0.03
81 151 0.97
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (80 bp):
TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
TAAATCAGGGTAAAA
Found at i:98167068 original size:43 final size:42
Alignment explanation
Indices: 98167014--98167166 Score: 193
Period size: 43 Copynumber: 3.6 Consensus size: 42
98167004 ATATCGTACA
98167014 ATGCCAATGTCCCAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATCACATATCG
** *
98167057 ATGCCGCTGTCCCAGACAG-GGTCTTACATGAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGAATCACATATCG
* *
98167098 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATCACATATCG
* * *
98167141 ATGCCAACGTCCCAAATGTGGTCTTA
1 ATGCCAATGTCCCAGACGTGGTCTTA
98167167 TACAAGAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 27 0.29
42 16 0.17
43 50 0.53
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:98169314 original size:49 final size:49
Alignment explanation
Indices: 98169259--98169354 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
98169249 ATTCGAAGCG
* *
98169259 ATCTCAAAAACGTAAAAATTATCAAAAATCGAACAAATTACATACCTTC
1 ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCTTC
98169308 ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCT
1 ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCT
98169355 AAATCAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (49 bp):
ATCTCAAAAACATAAAAATTATCAAAAATAGAACAAATTACATACCTTC
Found at i:98174275 original size:23 final size:22
Alignment explanation
Indices: 98174246--98174344 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 22
98174236 GACTCACCAT
*
98174246 AGCTCATAAGAGCTTACTGTTTT
1 AGCTCA-AAGAGCTTACTGTTTC
** ***
98174269 AGCTCATTGGAGCTTACCAATTC
1 AGCTCA-AAGAGCTTACTGTTTC
98174292 AGCTCGAAAGAGCTTACTG-TTC
1 AGCTC-AAAGAGCTTACTGTTTC
*
98174314 AGCCCAATAGAGCTTACTGTTCATC
1 AGCTCAA-AGAGCTTACTGTT--TC
98174339 AGCTCA
1 AGCTCA
98174345 GGAGGAGCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.03
22 18 0.31
23 31 0.53
24 1 0.02
25 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (22 bp):
AGCTCAAAGAGCTTACTGTTTC
Found at i:98187789 original size:19 final size:19
Alignment explanation
Indices: 98187765--98187810 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
98187755 AACATAGTTG
*
98187765 CATACTTTGTCATCTTTGA
1 CATACTCTGTCATCTTTGA
98187784 CATACTCTGTCATCTTTGA
1 CATACTCTGTCATCTTTGA
98187803 CATACTCT
1 CATACTCT
98187811 TCGAATTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (19 bp):
CATACTCTGTCATCTTTGA
Found at i:98189604 original size:28 final size:28
Alignment explanation
Indices: 98189564--98189631 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
98189554 TAGATGTACT
*
98189564 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
98189592 ATTATACCCCTATGTATGGAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
98189620 TTTATACCCCTA
1 ATTATACCCCTA
98189632 GGGTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:98189839 original size:29 final size:28
Alignment explanation
Indices: 98189737--98189828 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 28
98189727 AGGAAGCGTC
*
98189737 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
98189765 CTGGTGGCCCTGCCACATATATATCTGTT
1 CTGGTGGCACTGCCACA-AAATATCTGTT
98189794 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
98189823 CTGGTG
1 CTGGTG
98189829 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 24 0.43
29 32 0.57
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:98202464 original size:45 final size:45
Alignment explanation
Indices: 98202405--98202491 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
98202395 TATGTGATCT
* * *
98202405 GAACTCATTTAGTTGTGGTCTGATTTCATGATATATGTGACATCC
1 GAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
*
98202450 GAACTAATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACA
1 GAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACA
98202492 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (45 bp):
GAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
Found at i:98216100 original size:40 final size:40
Alignment explanation
Indices: 98216034--98216200 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
98216024 AAATTGAATG
* * *
98216034 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
98216073 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
98216113 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
98216153 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
98216193 ATATCCGG
1 ATATCCGG
98216201 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:98224107 original size:40 final size:40
Alignment explanation
Indices: 98224041--98224183 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 40
98224031 AAATTGAATG
* * *
98224041 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
98224080 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ** *
98224120 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAGAAACT
*
98224160 CTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
98224184 TTTGTGCACG
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 24 0.28
40 63 0.72
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:98224204 original size:39 final size:40
Alignment explanation
Indices: 98224078--98224206 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
98224068 ATGCTGGAAA
* * *
98224078 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
98224118 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
98224158 TTCTATCCGGGCTAAGA-CCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
98224197 TTATATCCGG
1 TTATATCCGG
98224207 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 26 0.35
40 48 0.64
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:98240223 original size:101 final size:99
Alignment explanation
Indices: 98240043--98240485 Score: 415
Period size: 101 Copynumber: 4.4 Consensus size: 99
98240033 ATTGTGAGAA
* * ** *** *
98240043 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG--TTA-GTCACGTGTGTAGTA
98240108 CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
63 CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
98240145 CACATGTATAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCAATCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA-TAGTT-AGTCACGTGTGTAGTAC
* *
98240210 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
64 TAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * ** * * *
98240246 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGTTA-GTCACGTGTGTAGTACT
* * * * * * *
98240311 AAGTGCAAGCTACTATGCGTACCTGACAACTTCA-AT
65 AAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
98240347 CACGTGTGTAGTACTAAGTGCAGGCTACTA--CATGTATCAGATGGTTAGTCACGAGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCA--TACCAGATAGTTAGTCACGTGTGTAGTAC
* *
98240410 TAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
64 TAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
98240446 CGCATGTGTAATACTAAGTGCAGGCTATTATGCGTACCAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAG
98240486 CTAGCTTCGG
Statistics
Matches: 270, Mismatches: 61, Indels: 23
0.76 0.17 0.06
Matches are distributed among these distances:
98 1 0.00
99 36 0.13
100 72 0.27
101 127 0.47
102 34 0.13
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (99 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGTTAGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:98240323 original size:151 final size:151
Alignment explanation
Indices: 98240047--98240483 Score: 696
Period size: 151 Copynumber: 2.9 Consensus size: 151
98240037 TGAGAACACA
* * * * *
98240047 TGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
* * *
98240112 GTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTATAGTACTAAGTGCAGGCTACTATG
64 GTGTAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
*
98240177 CATACCCGACAACTTCAATCACG
129 CGTACCCGACAACTTCAATCACG
98240200 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* *
98240265 GTAGGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCG
66 GTAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
*
98240330 TACCTGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
* *
98240351 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA-GTCACGAGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
98240415 GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAATACTAAGTGCAGGCTATTATGCG
66 GTAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
98240480 TACC
131 TACC
98240484 AGCTAGCTTC
Statistics
Matches: 265, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
150 84 0.32
151 146 0.55
153 35 0.13
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GTAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGACAACTTCAATCACG
Found at i:98240485 original size:50 final size:50
Alignment explanation
Indices: 98240043--98240472 Score: 427
Period size: 50 Copynumber: 8.5 Consensus size: 50
98240033 ATTGTGAGAA
* * * *** *
98240043 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
*
98240095 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * ** * * * *
98240145 CACATGTATAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * *
98240196 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * *
98240246 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * *
98240296 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
98240347 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA-GT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
98240396 CACGA-GTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
1 CAC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
98240446 CGCATGTGTAATACTAAGTGCAGGCTA
1 CACATGTGTAGTACTAAGTGCAGGCTA
98240473 TTATGCGTAC
Statistics
Matches: 308, Mismatches: 62, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
49 46 0.15
50 149 0.48
51 75 0.24
52 38 0.12
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:98240708 original size:16 final size:15
Alignment explanation
Indices: 98240687--98240716 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
98240677 GAATGGAGTA
98240687 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
98240703 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
98240717 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:98249100 original size:48 final size:48
Alignment explanation
Indices: 98249048--98249253 Score: 237
Period size: 48 Copynumber: 4.4 Consensus size: 48
98249038 AATCTTGGAT
* *
98249048 ATGGTCTTACATGGGATCACATATCGATGTCAACGCCATGCCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
* *
98249096 ATGGTCTTACATGGGATCACATATCGATGCCAATGACATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
* *
98249144 ATGGTCTTACATGGGATCACATATCGATG---TCG--ATAG-CCTAG-C
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCAT-GTCCCAGAC
* * ** * *
98249186 TATGGTCTTATACGAAATTACATATCGATGCCAAAGCCATGTCCCAGAC
1 -ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
98249235 ATGGTCTTACATGGGATCA
1 ATGGTCTTACATGGGATCA
98249254 TACATAACCC
Statistics
Matches: 129, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 30 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 93 0.72
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGAC
Found at i:98249229 original size:91 final size:93
Alignment explanation
Indices: 98249048--98249253 Score: 267
Period size: 91 Copynumber: 2.2 Consensus size: 93
98249038 AATCTTGGAT
* **
98249048 ATGGTCTTACATGGGATCACATATCGATGTCAACGCCATGCCCCAGACATGGTCTTACATGGGAT
1 ATGGTCTTACATGGGATCACATATCGATGT--ACG-CATGCCCCAGACATGGTCTTACACGAAAT
*
98249113 CACATATCGATGCCAATGACATGTCCCAGAC
63 CACATATCGATGCCAAAGACATGTCCCAGAC
* * *
98249144 ATGGTCTTACATGGGATCACATATCGATGT-CG-ATAG-CCTAG-CTATGGTCTTATACGAAATT
1 ATGGTCTTACATGGGATCACATATCGATGTACGCAT-GCCCCAGAC-ATGGTCTTACACGAAATC
*
98249205 ACATATCGATGCCAAAGCCATGTCCCAGAC
64 ACATATCGATGCCAAAGACATGTCCCAGAC
98249235 ATGGTCTTACATGGGATCA
1 ATGGTCTTACATGGGATCA
98249254 TACATAACCC
Statistics
Matches: 100, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
90 1 0.01
91 66 0.66
92 1 0.01
93 2 0.02
96 30 0.30
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (93 bp):
ATGGTCTTACATGGGATCACATATCGATGTACGCATGCCCCAGACATGGTCTTACACGAAATCAC
ATATCGATGCCAAAGACATGTCCCAGAC
Found at i:98254102 original size:43 final size:43
Alignment explanation
Indices: 98253985--98254198 Score: 151
Period size: 43 Copynumber: 4.9 Consensus size: 43
98253975 TAACATGTAT
* * *
98253985 ACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTTAC
1 ACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCT-C
* * * * *
98254029 ATGAATCGTATTATGAACTTAGACATCTCAACGAGCTCGGATGCTC
1 A--CATC-CATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTC
* * *
98254075 GCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGACGCT-
1 ACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTC
** * ** * * * * *
98254117 ACATAGATCACAAACTTAGACCACTCAACAAGTTCGGATTCTC
1 ACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTC
** * * *
98254160 ACATATATCATGAACTCGGACCGCTCAACGAGCTCGGAT
1 ACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGAT
98254199 TTCTAAATTC
Statistics
Matches: 129, Mismatches: 37, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
42 29 0.22
43 62 0.48
44 4 0.03
46 4 0.03
47 30 0.23
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTC
Found at i:98259882 original size:17 final size:17
Alignment explanation
Indices: 98259860--98259894 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
98259850 ATGAATACTT
98259860 AAATTTGCTAGAAGCTA
1 AAATTTGCTAGAAGCTA
98259877 AAATTTGCTAGAAGCTA
1 AAATTTGCTAGAAGCTA
98259894 A
1 A
98259895 TTAAAGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (17 bp):
AAATTTGCTAGAAGCTA
Found at i:98263354 original size:15 final size:16
Alignment explanation
Indices: 98263334--98263363 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98263324 ATTAGATCAT
98263334 TTTTTA-TTTAATAAG
1 TTTTTATTTTAATAAG
98263349 TTTTTATTTTAATAA
1 TTTTTATTTTAATAA
98263364 ATTAATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTTATTTTAATAAG
Found at i:98264941 original size:3 final size:3
Alignment explanation
Indices: 98264933--98264982 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
98264923 TGAGGATCCT
98264933 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
98264981 GA
1 GA
98264983 TCCCATAGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:98268122 original size:31 final size:31
Alignment explanation
Indices: 98268087--98268150 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
98268077 CCTTTTCATG
98268087 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
98268118 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
98268149 TT
1 TT
98268151 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:98268398 original size:22 final size:23
Alignment explanation
Indices: 98268356--98268502 Score: 194
Period size: 23 Copynumber: 6.4 Consensus size: 23
98268346 CTGGAGGCCT
* *
98268356 AGCCTCTTTTAATAACTGGGCAAA
1 AGCC-CTTTTGATAACTGGGCATA
98268380 AGCCCTTTT-ATAA-TGGGGCATA
1 AGCCCTTTTGATAACT-GGGCATA
*
98268402 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTGATAACT-GGGCATA
98268425 AGCCCTTTTGATAACTGGGCATA
1 AGCCCTTTTGATAACTGGGCATA
98268448 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACT-GGGCATA
*
98268472 AGCCC-TTTAATAACTGGGCATA
1 AGCCCTTTTGATAACTGGGCATA
98268494 AGCCCTTTT
1 AGCCCTTTT
98268503 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
21 4 0.04
22 31 0.27
23 54 0.47
24 25 0.22
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (23 bp):
AGCCCTTTTGATAACTGGGCATA
Found at i:98268575 original size:20 final size:20
Alignment explanation
Indices: 98268550--98268616 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
98268540 TTATGATTAC
98268550 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
98268570 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98268590 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98268610 ACCATGT
1 ATCATGT
98268617 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:98268581 original size:11 final size:11
Alignment explanation
Indices: 98268550--98268605 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
98268540 TTATGATTAC
98268550 ATCATGTGCAT
1 ATCATGTGCAT
*
98268561 ATCA--TACAT
1 ATCATGTGCAT
98268570 ATCATGTGCAT
1 ATCATGTGCAT
*
98268581 ATCA--TACAT
1 ATCATGTGCAT
*
98268590 GTCATGTGCAT
1 ATCATGTGCAT
98268601 ATCAT
1 ATCAT
98268606 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:98268685 original size:25 final size:25
Alignment explanation
Indices: 98268653--98268700 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
98268643 ATACATAAAC
* * *
98268653 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
98268678 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
98268701 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:98273125 original size:30 final size:31
Alignment explanation
Indices: 98273091--98273153 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
98273081 CCTTTTCATG
98273091 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
98273121 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
98273152 TT
1 TT
98273154 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:98273422 original size:23 final size:23
Alignment explanation
Indices: 98273366--98273507 Score: 232
Period size: 23 Copynumber: 6.1 Consensus size: 23
98273356 CCTAGCCTCT
*
98273366 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
98273389 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
98273411 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
98273434 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
98273458 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
98273482 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
98273505 TTT
1 TTT
98273508 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
22 21 0.18
23 47 0.41
24 46 0.40
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:98273447 original size:24 final size:24
Alignment explanation
Indices: 98273345--98273508 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
98273335 GCTTTATCAT
*
98273345 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
98273370 ATAACTGGGGCAAAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
98273392 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
98273415 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
98273439 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
98273463 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98273486 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
98273509 CACTTCCTCC
Statistics
Matches: 130, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
22 21 0.16
23 44 0.34
24 53 0.41
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:98273508 original size:47 final size:46
Alignment explanation
Indices: 98273344--98273508 Score: 244
Period size: 47 Copynumber: 3.5 Consensus size: 46
98273334 TGCTTTATCA
* *
98273344 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTT
98273391 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TT
*
98273437 TGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
98273484 TAATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
98273509 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
45 22 0.20
46 8 0.07
47 58 0.53
48 22 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
Found at i:98273581 original size:20 final size:20
Alignment explanation
Indices: 98273556--98273622 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
98273546 TTATGATTAC
98273556 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
98273576 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98273596 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98273616 ACCATGT
1 ATCATGT
98273623 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:98273587 original size:11 final size:11
Alignment explanation
Indices: 98273556--98273611 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
98273546 TTATGATTAC
98273556 ATCATGTGCAT
1 ATCATGTGCAT
*
98273567 ATCA--TACAT
1 ATCATGTGCAT
98273576 ATCATGTGCAT
1 ATCATGTGCAT
*
98273587 ATCA--TACAT
1 ATCATGTGCAT
*
98273596 GTCATGTGCAT
1 ATCATGTGCAT
98273607 ATCAT
1 ATCAT
98273612 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:98273691 original size:25 final size:25
Alignment explanation
Indices: 98273659--98273706 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
98273649 ATACATAAAC
* * *
98273659 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
98273684 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
98273707 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:98278103 original size:30 final size:31
Alignment explanation
Indices: 98278069--98278131 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
98278059 CCTTTTCATG
98278069 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
98278099 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
98278130 TT
1 TT
98278132 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:98278424 original size:24 final size:24
Alignment explanation
Indices: 98278322--98278462 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
98278312 GCTTTATCAT
*
98278322 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
98278347 ATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98278370 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
98278392 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
98278416 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98278440 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
98278463 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
22 19 0.17
23 28 0.26
24 50 0.46
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:98278450 original size:70 final size:70
Alignment explanation
Indices: 98278321--98278461 Score: 223
Period size: 70 Copynumber: 2.0 Consensus size: 70
98278311 TGCTTTATCA
*
98278321 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
98278386 CCCTT
66 CCCTT
* *
98278391 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCATA
98278454 AGCCCTT
64 AGCCCTT
98278461 T
1 T
98278462 TTCACTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
69 27 0.41
70 39 0.59
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
CCCTT
Found at i:98278536 original size:20 final size:20
Alignment explanation
Indices: 98278511--98278571 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
98278501 TTATGATTAC
98278511 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
98278531 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
98278551 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
98278571 A
1 A
98278572 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:98278542 original size:11 final size:11
Alignment explanation
Indices: 98278511--98278566 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
98278501 TTATGATTAC
98278511 ATCATGTGCAT
1 ATCATGTGCAT
*
98278522 ATCA--TACAT
1 ATCATGTGCAT
98278531 ATCATGTGCAT
1 ATCATGTGCAT
*
98278542 ATCA--TACAT
1 ATCATGTGCAT
*
98278551 GTCATGTGCAT
1 ATCATGTGCAT
98278562 ATCAT
1 ATCAT
98278567 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:98278646 original size:25 final size:25
Alignment explanation
Indices: 98278614--98278661 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
98278604 ATACATAAAC
* * *
98278614 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
98278639 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
98278662 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:98281653 original size:21 final size:22
Alignment explanation
Indices: 98281627--98281667 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
98281617 CACTTGACAC
98281627 AGGGGC-ACATGCCCGTGTGGG
1 AGGGGCAACATGCCCGTGTGGG
*
98281648 AGGGGCAACATGCCTGTGTG
1 AGGGGCAACATGCCCGTGTG
98281668 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.17
Consensus pattern (22 bp):
AGGGGCAACATGCCCGTGTGGG
Found at i:98283903 original size:40 final size:40
Alignment explanation
Indices: 98283858--98284025 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
98283848 CGGAATATAA
98283858 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
98283898 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
98283938 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
98283978 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
98284018 CCGGATAT
1 CCGGATAT
98284026 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:98291906 original size:40 final size:40
Alignment explanation
Indices: 98291861--98292028 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
98291851 CGGAATATAA
98291861 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
98291901 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
98291941 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
98291981 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
98292021 CCGGATAT
1 CCGGATAT
98292029 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:98298786 original size:17 final size:18
Alignment explanation
Indices: 98298751--98298788 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
98298741 CTTTAGGATT
98298751 TATTTTTTTTCCTTCTTC
1 TATTTTTTTTCCTTCTTC
98298769 TATTTTTTATT-CTT-TTC
1 TATTTTTT-TTCCTTCTTC
98298786 TAT
1 TAT
98298789 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTTTCCTTCTTC
Found at i:98299768 original size:27 final size:26
Alignment explanation
Indices: 98299737--98299797 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
98299727 TTTATTAAAC
* *
98299737 TACCCCTAAGTATGAAAATTACCGTTT
1 TACCCCTAAGTAT-AAAATGACCGTTA
* * *
98299764 TACCCCTAGGTGTTAAATGACCGTTA
1 TACCCCTAAGTATAAAATGACCGTTA
98299790 TACCCCTA
1 TACCCCTA
98299798 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (26 bp):
TACCCCTAAGTATAAAATGACCGTTA
Found at i:98299786 original size:26 final size:25
Alignment explanation
Indices: 98299752--98299804 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
98299742 CTAAGTATGA
* *
98299752 AAATTACCGTTTTACCCCTAGGTGTT
1 AAATGACCGTTATACCCCTAGG-GTT
98299778 AAATGACCGTTATACCCCTAGGGTT
1 AAATGACCGTTATACCCCTAGGGTT
98299803 AA
1 AA
98299805 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (25 bp):
AAATGACCGTTATACCCCTAGGGTT
Found at i:98300142 original size:20 final size:19
Alignment explanation
Indices: 98300099--98300144 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
98300089 GCTATTTTGT
*
98300099 TATGGGCCAACTGTATTGA
1 TATGGGCCAACTGTACTGA
* *
98300118 AATGGGTCCAACTGTGCTGA
1 TATGGG-CCAACTGTACTGA
98300138 TATGGGC
1 TATGGGC
98300145 TAGGCCCAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (19 bp):
TATGGGCCAACTGTACTGA
Found at i:98304531 original size:42 final size:42
Alignment explanation
Indices: 98304424--98304537 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
98304414 CATCTATTTA
* *
98304424 AGATATCGTGTAAGACCGTGTCTGGGACACAGACCTCGATTG
1 AGATTTCGTGTAAGACCATGTCTGGGACACAGACCTCGATTG
* * *
98304466 AGATTTACTTATAAGACCATGTCTGGGACATCAG-CTTCGTATCT-
1 AGATTT-CGTGTAAGACCATGTCTGGGACA-CAGACCTCG-AT-TG
*
98304510 A-ATTTCGTGTAAGACCCTGTCTGGGACA
1 AGATTTCGTGTAAGACCATGTCTGGGACA
98304538 GAGGCATCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 25 0.42
43 28 0.47
44 6 0.10
45 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCATGTCTGGGACACAGACCTCGATTG
Found at i:98314318 original size:29 final size:29
Alignment explanation
Indices: 98314285--98314445 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
98314275 GTGACGAGAT
98314285 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
98314314 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
98314343 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
98314372 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
98314401 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
98314430 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
98314446 AGCTCGAAGG
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:98314473 original size:87 final size:87
Alignment explanation
Indices: 98314281--98314465 Score: 219
Period size: 87 Copynumber: 2.1 Consensus size: 87
98314271 TATGGTGACG
* * * ** * *
98314281 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATG
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
* *
98314345 GCACTAAGTGTGCGTGCTGGAA
66 GCACTAAGTGTGCGAGCTCGAA
* * *
98314367 ATATAAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATACG
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
**
98314432 GCACTGGGTGTGCGAGCTCGAA
66 GCACTAAGTGTGCGAGCTCGAA
* *
98314454 GGGTATGGCACT
1 AGATATGGCACT
98314466 GTGTGTGCGG
Statistics
Matches: 80, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
86 3 0.04
87 77 0.96
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (87 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
GCACTAAGTGTGCGAGCTCGAA
Found at i:98319351 original size:517 final size:517
Alignment explanation
Indices: 98318378--98319411 Score: 1917
Period size: 517 Copynumber: 2.0 Consensus size: 517
98318368 CCCCATTTTA
*
98318378 ACATTTCAACTCGATGACTTTTCATCCACAATCCAGTACAACCCCCTAAGAAGTCAACCAGTCCA
1 ACATTTCAACTCGATGACTTTTCATCCACAATCCAATACAACCCCCTAAGAAGTCAACCAGTCCA
*
98318443 TACCGAGGATTATATCGAATTCATCAAACGGCAACAACATAAGGTTAGCCGAAAAATAATGACCT
66 TACCGAGGATTACATCGAATTCATCAAACGGCAACAACATAAGGTTAGCCGAAAAATAATGACCT
98318508 CTAATTTTCAAGGGACAGTTTCTACATACTTGGTCTACCAACACATGTTTGCCTAACGGGTTAGA
131 CTAATTTTCAAGGGACAGTTTCTACATACTTGGTCTACCAACACATGTTTGCCTAACGGGTTAGA
98318573 CACTTTAACCACAAATTCAATAGGTTCAACTAGCATATTCATACTGGGTACTAATTTCATGCAGA
196 CACTTTAACCACAAATTCAATAGGTTCAACTAGCATATTCATACTGGGTACTAATTTCATGCAGA
98318638 CATAAGAATGATTAGACCCCGGATCAATTCAAGCAATAATAGAAATATCATGAAAAGAAAAAGTA
261 CATAAGAATGATTAGACCCCGGATCAATTCAAGCAATAATAGAAATATCATGAAAAGAAAAAGTA
*
98318703 CCCGTAATCACATCTGGGGAAGATGCCTCTTCGCAAGCGCGAATGGCATAAGTCCTTATAGGCGC
326 CCCGTAATCACATCTGGGGAAGATGCCTCTTCGCAAGCGCGAATGGCATAAGTCCTTATAGGCAC
98318768 ACAGCCCTCGGACCTCACAGCTGAATCTCTACAAGCACCTCTACCGCTAGCCCCACTGTCTGGGT
391 ACAGCCCTCGGACCTCACAGCTGAATCTCTACAAGCACCTCTACCGCTAGCCCCACTGTCTGGGT
98318833 TCTTTTGTGGTCT-ACCTATCGAAGGAGCACTACTTGCCCTCACATCTTGCTTTTTCTCTTTC
456 TCTTTTGTGGTCTAACC-ATCGAAGGAGCACTACTTGCCCTCACATCTTGCTTTTTCTCTTTC
* *
98318895 ACATTTCAACTCGATGACTTTTCGTCCACAATCCAATACAACCCCCTGAGAAGTCAACCAGTCCA
1 ACATTTCAACTCGATGACTTTTCATCCACAATCCAATACAACCCCCTAAGAAGTCAACCAGTCCA
98318960 TACCGAGGATTACATCGAATTCATCAAACGGCAACAACATAAGGTTAGCCGAAAAATAATGACCT
66 TACCGAGGATTACATCGAATTCATCAAACGGCAACAACATAAGGTTAGCCGAAAAATAATGACCT
98319025 CTAATTTTCAAGGGACAGTTTCTACATACTTGGTCTACCAACACATGTTTGCCTAACGGGTTAGA
131 CTAATTTTCAAGGGACAGTTTCTACATACTTGGTCTACCAACACATGTTTGCCTAACGGGTTAGA
*
98319090 CACTTTAACCACAAATTCAATAGGTTCAACTAGTATATTCATACTGGGTACTAATTTCATGCAGA
196 CACTTTAACCACAAATTCAATAGGTTCAACTAGCATATTCATACTGGGTACTAATTTCATGCAGA
* *
98319155 CATAAGAATGATTAGACCGCGGATCAATTCAAGCAATAATAGTAATATCATGAAAAGAAAAAGTA
261 CATAAGAATGATTAGACCCCGGATCAATTCAAGCAATAATAGAAATATCATGAAAAGAAAAAGTA
* *
98319220 CCCGTAATCACATTTGGGGAAGATGCCTCTTTGCAAGCGCGAATGGCATAAGTCCTTATAGGCAC
326 CCCGTAATCACATCTGGGGAAGATGCCTCTTCGCAAGCGCGAATGGCATAAGTCCTTATAGGCAC
* * * *
98319285 ACGGCCCTCGGGCCTTACAGCTGAATCTCTACAAGCATCTCTACCGCTAGCCCCACTGTCTGGGT
391 ACAGCCCTCGGACCTCACAGCTGAATCTCTACAAGCACCTCTACCGCTAGCCCCACTGTCTGGGT
*
98319350 TCTTTTGTTGTCTAACCATCGAAGGAGCACTACTTGCCCTCACATCTTGCTTTTTCTCTTTC
456 TCTTTTGTGGTCTAACCATCGAAGGAGCACTACTTGCCCTCACATCTTGCTTTTTCTCTTTC
98319412 TCATCCAACT
Statistics
Matches: 501, Mismatches: 15, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
517 498 0.99
518 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (517 bp):
ACATTTCAACTCGATGACTTTTCATCCACAATCCAATACAACCCCCTAAGAAGTCAACCAGTCCA
TACCGAGGATTACATCGAATTCATCAAACGGCAACAACATAAGGTTAGCCGAAAAATAATGACCT
CTAATTTTCAAGGGACAGTTTCTACATACTTGGTCTACCAACACATGTTTGCCTAACGGGTTAGA
CACTTTAACCACAAATTCAATAGGTTCAACTAGCATATTCATACTGGGTACTAATTTCATGCAGA
CATAAGAATGATTAGACCCCGGATCAATTCAAGCAATAATAGAAATATCATGAAAAGAAAAAGTA
CCCGTAATCACATCTGGGGAAGATGCCTCTTCGCAAGCGCGAATGGCATAAGTCCTTATAGGCAC
ACAGCCCTCGGACCTCACAGCTGAATCTCTACAAGCACCTCTACCGCTAGCCCCACTGTCTGGGT
TCTTTTGTGGTCTAACCATCGAAGGAGCACTACTTGCCCTCACATCTTGCTTTTTCTCTTTC
Found at i:98322129 original size:49 final size:50
Alignment explanation
Indices: 98322064--98322190 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 50
98322054 TCAAGTCGAT
* * *
98322064 GCCATGTCCCAAACATGGTCTTACACTAACTATTATCAT-TGAG-GCCAAC
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCA-CATATCAGTGCCAAC
* * * * * *
98322113 GCCATGTCCCAGACATGGTCTTACATTAGCTCTCACATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATCAGTGCCAAC
*
98322163 GCCATGTCCCCGACATGGTCTTACACTA
1 GCCATGTCCCAGACATGGTCTTACACTA
98322191 GCTCACGTCT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 32 0.49
50 30 0.46
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATCAGTGCCAAC
Found at i:98322216 original size:48 final size:48
Alignment explanation
Indices: 98322009--98322234 Score: 206
Period size: 48 Copynumber: 4.7 Consensus size: 48
98321999 ATAGGGTATG
* * * *
98322009 ATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCA
* * * *
98322057 A-GTCGATGCCATGTCCCAAACATGGTCTTACACTAACT-A-TTATCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCA
* * * * * *
98322102 TTGAGGCCAACGCCATGTCCCAGACATGGTCTTACATTAGCTCTCACATATCC
1 ---ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACGTATCA
* * *
98322155 GTGCCGATGCCATGTCCCCGACATGGTCTTACACTAGCTCACGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCA
* * *
98322203 ATGCCGATTCCATGTCCTAAACATGGTCTTAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTAC
98322235 TTTGGCTCTC
Statistics
Matches: 141, Mismatches: 29, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
45 4 0.03
46 1 0.01
47 32 0.23
48 37 0.26
49 29 0.21
50 31 0.22
51 2 0.01
52 1 0.01
53 4 0.03
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTATCA
Found at i:98334376 original size:18 final size:19
Alignment explanation
Indices: 98334345--98334382 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
98334335 TGGCCTCTAT
*
98334345 GGATTTTTATTTTAGTTTG
1 GGATTTTTAGTTTAGTTTG
*
98334364 GGATTTTT-GTTTATTTTG
1 GGATTTTTAGTTTAGTTTG
98334382 G
1 G
98334383 TTTATTACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.13, C:0.00, G:0.24, T:0.63
Consensus pattern (19 bp):
GGATTTTTAGTTTAGTTTG
Found at i:98335356 original size:20 final size:20
Alignment explanation
Indices: 98335331--98335368 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98335321 GTTTATTCGC
*
98335331 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
98335351 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
98335369 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:98337018 original size:28 final size:28
Alignment explanation
Indices: 98336986--98337054 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
98336976 GCGTAGATCA
98336986 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
98337014 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
98337042 CGATA-TACCCCTA
1 CGAAATTACCCCTA
98337055 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:98343399 original size:18 final size:17
Alignment explanation
Indices: 98343371--98343404 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
98343361 TCATTTTCTG
98343371 TATTTTATTTGTTATAA
1 TATTTTATTTGTTATAA
98343388 TATTTATATTTGTTATA
1 TATTT-TATTTGTTATA
98343405 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATTTGTTATAA
Found at i:98343443 original size:39 final size:39
Alignment explanation
Indices: 98343393--98343485 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
98343383 TATAATATTT
* * *
98343393 ATATTTGTTATATTAAATGTATTTAT-TATGTCTTTTAA
1 ATATTTGTTATATTAAATATATATATATATGTATTTTAA
* *
98343431 ATATTATGTTATA-TATATATATATATATATGTATTTTCA
1 ATATT-TGTTATATTAAATATATATATATATGTATTTTAA
98343470 ATATTGTTGTTATATT
1 ATA-T-TTGTTATATT
98343486 TATTATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 15 0.33
39 20 0.44
40 8 0.18
41 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (39 bp):
ATATTTGTTATATTAAATATATATATATATGTATTTTAA
Found at i:98343966 original size:27 final size:27
Alignment explanation
Indices: 98343935--98343991 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
98343925 TTATGCATAC
* * * *
98343935 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATAT
98343962 ATACTCTTAACATCATATTATATATAT
1 ATACTCTTAACATCATATTATATATAT
98343989 ATA
1 ATA
98343992 TATATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.49
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATAT
Found at i:98343987 original size:2 final size:2
Alignment explanation
Indices: 98343976--98344008 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
98343966 TCTTAACATC
98343976 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98344009 CTTGCACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:98344059 original size:17 final size:17
Alignment explanation
Indices: 98344029--98344061 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98344019 ATTTTTAATA
98344029 CTTTACTATATATATAC
1 CTTTACTATATATATAC
98344046 CTTTA-TATATTATATA
1 CTTTACTATA-TATATA
98344062 TATTTTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
CTTTACTATATATATAC
Found at i:98344168 original size:2 final size:2
Alignment explanation
Indices: 98344156--98344185 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
98344146 CATGTTTTAT
*
98344156 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98344186 CTCTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:98356827 original size:79 final size:81
Alignment explanation
Indices: 98356723--98356876 Score: 240
Period size: 79 Copynumber: 1.9 Consensus size: 81
98356713 TCAATTTATG
* * *
98356723 TTTCAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
98356788 AATTTATGTTTCTGCT
66 AATTTATGTTTCTGCT
* *
98356804 TTTC-AAA-AATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 TTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
98356867 AATTTCTGTT
66 AATTTATGTT
98356877 CTTCTAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 60 0.90
80 3 0.04
81 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (81 bp):
TTTCAAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTATGTTTCTGCT
Found at i:98357075 original size:55 final size:55
Alignment explanation
Indices: 98356979--98357245 Score: 412
Period size: 55 Copynumber: 4.9 Consensus size: 55
98356969 TCTGTTTTCC
* * *
98356979 ATTTATGTTTTTCAAAAA-TCAACTCATATTGCAAGAAGTGAGTTGAGCCTTTTA
1 ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
98357033 ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
1 ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
* *
98357088 ATTTCTGTTTTTCAAAAAGTCAACACATATTGCAAGAGGTGAGTTGAGCCTTTTA
1 ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
*
98357143 ATTTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
1 ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
* * * * **
98357198 ATATCTATTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGC
98357246 TCAAGATCAC
Statistics
Matches: 199, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
54 49 0.25
55 150 0.75
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (55 bp):
ATTTCTGTTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
Found at i:98359068 original size:18 final size:17
Alignment explanation
Indices: 98359040--98359073 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
98359030 TCATTTTCTG
98359040 TATTTTATTTGTTATAA
1 TATTTTATTTGTTATAA
98359057 TATTTATATTTGTTATA
1 TATTT-TATTTGTTATA
98359074 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATTTGTTATAA
Found at i:98359638 original size:27 final size:27
Alignment explanation
Indices: 98359607--98359663 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
98359597 CTATGCATAC
* * * *
98359607 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATAT
98359634 ATACTCTTAACATCATATTATATATAT
1 ATACTCTTAACATCATATTATATATAT
98359661 ATA
1 ATA
98359664 TATATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.49
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATAT
Found at i:98359659 original size:2 final size:2
Alignment explanation
Indices: 98359648--98359676 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
98359638 TCTTAACATC
98359648 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98359677 CTTGCACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:98369155 original size:43 final size:43
Alignment explanation
Indices: 98369107--98369218 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
98369097 TCTTAGATAT
* * *
98369107 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACAG
* * * *
98369150 GGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAAACAG
*
98369193 GGTCTTACATGTAATCACATCTCGAT
1 GGTCTTACATGTAATCACATATCGAT
98369219 AACCTAATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.04
43 53 0.95
44 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACAG
Found at i:98381256 original size:23 final size:23
Alignment explanation
Indices: 98381230--98381276 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
98381220 CATTCTATTG
*
98381230 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
98381253 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
98381276 T
1 T
98381277 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:98391077 original size:6 final size:6
Alignment explanation
Indices: 98391068--98391177 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
98391058 AAACACAACG
* *
98391068 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * * *
98391117 AGAATT AG-GTGAC AGAATT AGAATC AAAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
98391167 AAAATC AGAAT
1 AGAATC AGAAT
98391178 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.05
6 65 0.82
7 7 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:98391105 original size:31 final size:31
Alignment explanation
Indices: 98391068--98391177 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
98391058 AAACACAACG
98391068 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATTAGGT----G-A-CAGAATC
*
98391105 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* * * *
98391136 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
*
98391167 AAAATCAGAAT
1 AGAATCAGAAT
98391178 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
31 41 0.63
32 1 0.02
33 1 0.02
37 22 0.34
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:98391110 original size:37 final size:37
Alignment explanation
Indices: 98391068--98391155 Score: 149
Period size: 37 Copynumber: 2.4 Consensus size: 37
98391058 AAACACAACG
98391068 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
*
98391105 AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
* *
98391142 AAAATCAGTATCAG
1 AGAATCAGAATCAG
98391156 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
Found at i:98391177 original size:37 final size:36
Alignment explanation
Indices: 98391068--98391177 Score: 131
Period size: 37 Copynumber: 3.1 Consensus size: 36
98391058 AAACACAACG
98391068 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATCA-AATC
98391105 AGAATCAGAATCAGAATTAGGTGACAGAAT----T-
1 AGAATCAGAATCAGAATTAGGTGACAGAATCAAATC
* * * *
98391136 AGAATCAAAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC-AAATC
98391173 AGAAT
1 AGAAT
98391178 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
31 26 0.41
32 1 0.02
36 1 0.02
37 35 0.56
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (36 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATCAAATC
Found at i:98391344 original size:27 final size:26
Alignment explanation
Indices: 98391296--98391355 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
98391286 GCGAGGCTGC
*
98391296 CAGATATTGTGACAAAGTCACCAAATA
1 CAGATATTGTGACAAAGCCACCAAA-A
* * * *
98391323 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAAAA
98391349 CAGATAT
1 CAGATAT
98391356 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAAAA
Found at i:98391359 original size:2 final size:2
Alignment explanation
Indices: 98391352--98391386 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
98391342 ACCAGAACAG
98391352 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98391387 GTGACGAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:98391375 original size:15 final size:15
Alignment explanation
Indices: 98391355--98391384 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
98391345 AGAACAGATA
98391355 TATATATATATATAT
1 TATATATATATATAT
98391370 TATATATATATATAT
1 TATATATATATATAT
98391385 ATGTGACGAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:98391375 original size:17 final size:17
Alignment explanation
Indices: 98391353--98391386 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
98391343 CCAGAACAGA
98391353 TATATATATATATATAT
1 TATATATATATATATAT
98391370 TATATATATATATATAT
1 TATATATATATATATAT
98391387 GTGACGAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:98392169 original size:27 final size:27
Alignment explanation
Indices: 98392139--98392265 Score: 193
Period size: 27 Copynumber: 4.7 Consensus size: 27
98392129 TCTACCCTAT
**
98392139 AGGGGTATTTCAGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAATC
*
98392166 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATC
* *
98392193 AGGGATATTTTGGTAATTTTACTAATC
1 AGGGGTATTTTGGTAATTTTACAAATC
98392220 -GAGGGTATTTTGGTAATTTTACAAATC
1 AG-GGGTATTTTGGTAATTTTACAAATC
98392247 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
98392266 GGTAAACTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 88 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAATC
Found at i:98394397 original size:25 final size:25
Alignment explanation
Indices: 98394366--98394430 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
98394356 TCAAAATAAG
98394366 AATCAGAATCAGAATTAGGTGACAA
1 AATCAGAATCAGAATTAGGTGACAA
* * *
98394391 AATCAGAATCAAAATTAGTTGACAG
1 AATCAGAATCAGAATTAGGTGACAA
* *
98394416 AATTAGAATTAGAAT
1 AATCAGAATCAGAAT
98394431 CAGTATTAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (25 bp):
AATCAGAATCAGAATTAGGTGACAA
Found at i:98394399 original size:31 final size:31
Alignment explanation
Indices: 98394357--98394461 Score: 87
Period size: 31 Copynumber: 3.6 Consensus size: 31
98394347 GAACTAGAAT
*
98394357 CAAAATAAGAATCAGAATCAGAATTAGGTGA
1 CAAAATCAGAATCAGAATCAGAATTAGGTGA
*
98394388 CAAAATCAGAATC---A--A-AATTAGTTGA
1 CAAAATCAGAATCAGAATCAGAATTAGGTGA
* * * * *
98394413 CAGAATTAGAATTAGAATCAGTATTAGGTAA
1 CAAAATCAGAATCAGAATCAGAATTAGGTGA
* *
98394444 CAGAATCAAAATCAGAAT
1 CAAAATCAGAATCAGAAT
98394462 ATGAATGCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
25 19 0.33
26 1 0.02
28 2 0.04
30 1 0.02
31 34 0.60
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.23
Consensus pattern (31 bp):
CAAAATCAGAATCAGAATCAGAATTAGGTGA
Found at i:98394712 original size:2 final size:2
Alignment explanation
Indices: 98394705--98394732 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
98394695 TCACCAGAAC
98394705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98394733 CGAGGCCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98395403 original size:27 final size:27
Alignment explanation
Indices: 98395371--98395434 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
98395361 AGGCAAAATG
* *
98395371 GTAATTTTACCCCACGAGGGTATCTCA
1 GTAATTTTACCCCACAACGGTATCTCA
* * *
98395398 GTAATTCTACCCTACAACGGTATTTCA
1 GTAATTTTACCCCACAACGGTATCTCA
98395425 GTAATTTTAC
1 GTAATTTTAC
98395435 AAATCAGGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (27 bp):
GTAATTTTACCCCACAACGGTATCTCA
Found at i:98399040 original size:38 final size:39
Alignment explanation
Indices: 98398989--98399289 Score: 367
Period size: 39 Copynumber: 7.7 Consensus size: 39
98398979 TAATTGAGGA
* *
98398989 TTATAACCGGGCTAAGACCC-ATAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGACCCGA-AGGCATTCGTGCTG-G-TG
*
98399027 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* *
98399066 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * *
98399105 TTATGTCCGGTCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * *
98399144 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGCTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * *
98399183 TTATATCCAGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * * *
98399222 TTATATCTGGGCTAAGTCCCGAAGGTATTCATGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* *
98399261 TTATATCCGGGCTAAGTCCTGAAGGCATT
1 TTATATCCGGGCTAAGACCCGAAGGCATT
98399290 TGTGTTGGAA
Statistics
Matches: 240, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
38 25 0.10
39 213 0.89
40 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
Found at i:98399075 original size:39 final size:39
Alignment explanation
Indices: 98399027--98399289 Score: 427
Period size: 39 Copynumber: 6.7 Consensus size: 39
98399017 TGTGTGAGAT
98399027 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
98399066 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
98399105 TTATGTCCGGTCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
98399144 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGCTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
98399183 TTATATCCAGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
98399222 TTATATCTGGGCTAAGTCCCGAAGGTATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
98399261 TTATATCCGGGCTAAGTCCTGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
98399290 TGTGTTGGAA
Statistics
Matches: 208, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 208 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:98401252 original size:28 final size:28
Alignment explanation
Indices: 98401189--98401288 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
98401179 ATAGTGAGTC
*
98401189 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
*
98401216 CGTACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
98401244 CGCACACTTAGTGCTGTACAAATTTTAAACC
1 CGCACACTTAGTGCTATAC-AA--TCAAACT
98401275 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98401289 CAATTTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.33
28 21 0.33
29 2 0.03
31 19 0.30
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:98401729 original size:26 final size:30
Alignment explanation
Indices: 98401675--98401730 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
98401665 TGGACACTTT
98401675 TTTTTTCTTTTCTTTGTTTTCATCATATTTC
1 TTTTTTCTTTTCTTTGTTTTCAT-ATATTTC
98401706 TTTTTTC-TTT-TTT-TTTTCAT-TATTT
1 TTTTTTCTTTTCTTTGTTTTCATATATTT
98401731 TATCACCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 5 0.20
28 7 0.28
29 3 0.12
30 3 0.12
31 7 0.28
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.77
Consensus pattern (30 bp):
TTTTTTCTTTTCTTTGTTTTCATATATTTC
Found at i:98408182 original size:80 final size:80
Alignment explanation
Indices: 98408098--98408246 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
98408088 TATGGTAACC
* * * *
98408098 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
98408162 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
98408178 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
98408243 CCGG
66 CCGG
98408247 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:98408188 original size:40 final size:38
Alignment explanation
Indices: 98408139--98408246 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
98408129 ATCACGATTT
*
98408139 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
98408179 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
98408219 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
98408247 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:98416249 original size:80 final size:80
Alignment explanation
Indices: 98416165--98416313 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
98416155 TATGGTAACC
* * * *
98416165 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
98416229 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
98416245 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
98416310 CCGG
66 CCGG
98416314 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:98416255 original size:40 final size:38
Alignment explanation
Indices: 98416206--98416313 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
98416196 ATCACGATTT
*
98416206 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
98416246 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
98416286 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
98416314 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:98419756 original size:27 final size:27
Alignment explanation
Indices: 98419737--98419806 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
98419727 ATAGTGAGTC
98419737 CGCACACTTAGTGCTCTATAATCAACT
1 CGCACACTTAGTGCTCTATAATCAACT
* *
98419764 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTCTATAATC-AACT
98419792 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
98419807 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTCTATAATCAACT
Found at i:98419800 original size:28 final size:28
Alignment explanation
Indices: 98419737--98419836 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
98419727 ATAGTGAGTC
* *
98419737 CGCACACTTAGTGCTCTATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
98419764 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
98419792 CGCACACTTAGTGCTGTACAAATTTTAAACC
1 CGCACACTTAGTGCTATAC-AA--TCAAACT
98419823 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98419837 CAATTTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.34
29 2 0.03
31 19 0.30
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:98430369 original size:32 final size:32
Alignment explanation
Indices: 98430331--98430395 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
98430321 TGTGAAAACG
98430331 GTGAAATTCTTCGAGTTGAATTAAATGAGCGA
1 GTGAAATTCTTCGAGTTGAATTAAATGAGCGA
*
98430363 GTGAAATTCTTCGAGTTGAATTAGATGAGCGA
1 GTGAAATTCTTCGAGTTGAATTAAATGAGCGA
98430395 G
1 G
98430396 ATAGATTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (32 bp):
GTGAAATTCTTCGAGTTGAATTAAATGAGCGA
Found at i:98439018 original size:24 final size:24
Alignment explanation
Indices: 98438965--98439058 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
98438955 CAGCTCGTAT
* * *
98438965 GAGCTTACTGATATATCAGCTCGTAA
1 GAGCTTACTG-T-TTTCAGCTCATTA
*
98438991 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCATTA
98439015 GAGCTTA-TCG-TTTCAGCTCATTA
1 GAGCTTACT-GTTTTCAGCTCATTA
*
98439038 GAGCTTACTGTTATCAGCTCA
1 GAGCTTACTGTTTTCAGCTCA
98439059 GGAGGAGCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 21 0.36
24 27 0.46
25 1 0.02
26 10 0.17
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCATTA
Found at i:98446742 original size:41 final size:41
Alignment explanation
Indices: 98446677--98446836 Score: 189
Period size: 41 Copynumber: 3.9 Consensus size: 41
98446667 GCAAATCAGA
*
98446677 ATAGCTTCGGCTAT-ATATGGCACTTAGTGTGCGAGACTGAG
1 ATAGCTTCGGCTATGA-AAGGCACTTAGTGTGCGAGACTGAG
* *
98446718 ATAGCTTCGGCTATGAAAGACACTTAGTGTGCGAGACTGTG
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTGAG
* * * *
98446759 ATAGCTTCGACTATGAAAGGCACTTAGTGTACGAGA-TTACA
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTGA-G
***
98446800 ATAGCTTCGGCTATGCTTTGGCACTTAGTGTGCGAGA
1 ATAGCTTCGGCTATG-AAAGGCACTTAGTGTGCGAGA
98446837 TATTGAGTAT
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 83 0.81
42 18 0.18
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (41 bp):
ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTGAG
Found at i:98448085 original size:42 final size:42
Alignment explanation
Indices: 98448021--98448114 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
98448011 GCCCTGTTTT
*
98448021 CACACGGTCTATGACGCGGGTGTGTCTAGTGGCCATGTAAGG
1 CACACGGTCTATGACACGGGTGTGTCTAGTGGCCATGTAAGG
* * * * *
98448063 CACATGGTCTATGACATGGGTGTGTCTGGTGGCCGTGTGAGG
1 CACACGGTCTATGACACGGGTGTGTCTAGTGGCCATGTAAGG
98448105 CACACGGTCT
1 CACACGGTCT
98448115 GTTCACACTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.17, C:0.21, G:0.36, T:0.26
Consensus pattern (42 bp):
CACACGGTCTATGACACGGGTGTGTCTAGTGGCCATGTAAGG
Found at i:98450504 original size:37 final size:37
Alignment explanation
Indices: 98450449--98450551 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
98450439 CGAATAGTCC
* *
98450449 CCACGCGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
98450486 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
98450523 CCACACGTAGTCATCGGGTCCTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
98450552 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:98450752 original size:48 final size:48
Alignment explanation
Indices: 98450700--98451500 Score: 1333
Period size: 48 Copynumber: 16.7 Consensus size: 48
98450690 ACATCTCCTA
*
98450700 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
98450748 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
* *
98450797 -AAATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
98450844 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
98450892 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * *
98450940 CATATTTCACACTAGCCATTCGGCTTTATCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
98450988 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
98451036 CATATTTCACATTAGGCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
98451085 -ATATTTCACATTAGCCATTCCGCTTTACCACATATACATATCTCATT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
98451132 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
98451180 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
98451228 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
98451277 -ATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCATT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
98451324 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * *
98451372 CATATTTCACATTAGCCATTCCGCTTTATCACATATTCATATCTCATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
98451421 -ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
98451469 -ATATTTCACATTAGCCATTCGGCTTTACCACA
1 CATATTTCACATTAGCCATTCGGCTTTACCACA
98451501 CACATATATA
Statistics
Matches: 711, Mismatches: 35, Indels: 14
0.94 0.05 0.02
Matches are distributed among these distances:
47 3 0.00
48 707 0.99
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:98463969 original size:18 final size:18
Alignment explanation
Indices: 98463946--98463983 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
98463936 ATTGAGACAA
98463946 TTATTTGATTGAAA-TAAT
1 TTATTT-ATTGAAATTAAT
*
98463964 TTATTTATTTAAATTAAT
1 TTATTTATTGAAATTAAT
98463982 TT
1 TT
98463984 TAAGATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TTATTTATTGAAATTAAT
Found at i:98471483 original size:17 final size:17
Alignment explanation
Indices: 98471463--98471506 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
98471453 TTTGAAAATG
*
98471463 TTATTTTTATCTCTTAT
1 TTATTTTTATCACTTAT
* * *
98471480 TTATTTTAATGACTTTT
1 TTATTTTTATCACTTAT
98471497 TTATTTTTAT
1 TTATTTTTAT
98471507 TTTTTTCCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTTTATCACTTAT
Found at i:98476196 original size:19 final size:19
Alignment explanation
Indices: 98476172--98476214 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
98476162 AAACAAAAAG
98476172 TAAATCAATTTTTACATTC
1 TAAATCAATTTTTACATTC
*
98476191 TAAATCAATTTTTGCATTC
1 TAAATCAATTTTTACATTC
98476210 TAAAT
1 TAAAT
98476215 GTTGGATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (19 bp):
TAAATCAATTTTTACATTC
Found at i:98480352 original size:27 final size:27
Alignment explanation
Indices: 98480314--98480369 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
98480304 CTTGGCTACC
98480314 CAAGCCTAGCCGAATGTACTATAAGCT
1 CAAGCCTAGCCGAATGTACTATAAGCT
98480341 CAAGCCTAGCCGAATGTACTATAAGCT
1 CAAGCCTAGCCGAATGTACTATAAGCT
98480368 CA
1 CA
98480370 TACTAGCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (27 bp):
CAAGCCTAGCCGAATGTACTATAAGCT
Found at i:98485488 original size:9 final size:8
Alignment explanation
Indices: 98485474--98485517 Score: 56
Period size: 7 Copynumber: 5.6 Consensus size: 8
98485464 TTATATTTTC
98485474 TTTTTGAA
1 TTTTTGAA
98485482 TTTTTTGAA
1 -TTTTTGAA
98485491 -TTTTGAA
1 TTTTTGAA
98485498 -TTTTGAA
1 TTTTTGAA
*
98485505 TTTTTAAA
1 TTTTTGAA
98485513 TTTTT
1 TTTTT
98485518 TTATAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 14 0.42
8 11 0.33
9 8 0.24
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (8 bp):
TTTTTGAA
Found at i:98487182 original size:23 final size:23
Alignment explanation
Indices: 98487156--98487202 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
98487146 AAAAACTTTG
* *
98487156 AGATTTTATTTTTATGTAAATTT
1 AGATTTTATCTTTACGTAAATTT
98487179 AGATTTTATCTTTACGTAAATTT
1 AGATTTTATCTTTACGTAAATTT
98487202 A
1 A
98487203 AATTAATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (23 bp):
AGATTTTATCTTTACGTAAATTT
Found at i:98487911 original size:18 final size:17
Alignment explanation
Indices: 98487884--98487922 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
98487874 TCTTGATATA
* *
98487884 TATATTTTTTAGTATTTT
1 TATATATTTTAAT-TTTT
98487902 TATATATTTTAATTTTT
1 TATATATTTTAATTTTT
98487919 TATA
1 TATA
98487923 ACATCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TATATATTTTAATTTTT
Found at i:98488406 original size:21 final size:21
Alignment explanation
Indices: 98488380--98488421 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
98488370 TTTAAATAAT
98488380 ATCAACCAAAATTAAATTAGG
1 ATCAACCAAAATTAAATTAGG
98488401 ATCAACCAAAATTAAATTAGG
1 ATCAACCAAAATTAAATTAGG
98488422 GTGTGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (21 bp):
ATCAACCAAAATTAAATTAGG
Found at i:98489304 original size:18 final size:17
Alignment explanation
Indices: 98489266--98489307 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
98489256 AAAAGCTATT
*
98489266 TTTACATATATTAATAA
1 TTTATATATATTAATAA
98489283 TTTATATATATTAATAAA
1 TTTATATATATTAAT-AA
98489301 TTTATAT
1 TTTATAT
98489308 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTATATATATTAATAA
Done.