Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 6 of 207
Found at i:2025478 original size:95 final size:95
Alignment explanation
Indices: 2025315--2025505 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
2025305 AAATATCTCA
2025315 TTAAAATATTAATAAAGTAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCTCT
1 TTAAAATATTAATAAAGTAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCTCT
2025380 AACATCATCATTGCCTTCTAGATTTCTCTT
66 AACATCATCATTGCCTTCTAGATTTCTCTT
2025410 TTAAAATATTAATAAAGTAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCTCT
1 TTAAAATATTAATAAAGTAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCTCT
2025475 AACATCATCATTGCCTTCTAGATTTCTCTT
66 AACATCATCATTGCCTTCTAGATTTCTCTT
2025505 T
1 T
2025506 CTTTCTAATT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (95 bp):
TTAAAATATTAATAAAGTAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCTCT
AACATCATCATTGCCTTCTAGATTTCTCTT
Found at i:2027987 original size:19 final size:19
Alignment explanation
Indices: 2027963--2028028 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
2027953 TCTCTCCCGA
2027963 CAAAATTTTTTAAAAAATT
1 CAAAATTTTTTAAAAAATT
2027982 CAAAATAATTTTT--AAAATT
1 CAAAAT--TTTTTAAAAAATT
* *
2028001 TAAAA-TATTTATAAAAATT
1 CAAAATTTTTTA-AAAAATT
2028020 CCAAAATTT
1 -CAAAATTT
2028029 ATATTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 4 0.11
19 22 0.61
20 4 0.11
21 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
CAAAATTTTTTAAAAAATT
Found at i:2028015 original size:18 final size:19
Alignment explanation
Indices: 2027971--2028026 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2027961 GACAAAATTT
*
2027971 TTTAAAAAATTCAAAATAA
1 TTTATAAAATTCAAAATAA
* *
2027990 TTTTTAAAATTTAAAAT-A
1 TTTATAAAATTCAAAATAA
2028008 TTTATAAAAATTCCAAAAT
1 TTTAT-AAAATT-CAAAAT
2028027 TTATATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 5 0.17
19 20 0.67
20 5 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTATAAAATTCAAAATAA
Found at i:2028063 original size:22 final size:21
Alignment explanation
Indices: 2028038--2028104 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
2028028 TATATTTTTT
2028038 AAATAAATTATAAAAATTTCAA
1 AAATAAATTATAAAAATTT-AA
* *
2028060 AAATAAATTCTAAAAATATAA
1 AAATAAATTATAAAAATTTAA
* *
2028081 AAGA-AAGTTAAAAAAATTTAA
1 AA-ATAAATTATAAAAATTTAA
2028102 AAA
1 AAA
2028105 ATATTCTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 19 0.50
22 18 0.47
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (21 bp):
AAATAAATTATAAAAATTTAA
Found at i:2032165 original size:41 final size:39
Alignment explanation
Indices: 2032040--2032168 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
2032030 CGGCACTCAA
* * * *
2032040 TGTCTCATCGGATAATTCAAAGTAATAATTTGACATCTAG
1 TGTCTCATCGAATAATCCAAAGTAATAA-TTGACACCCAG
* * * * *
2032080 TGTCTCATC-AGCTAAACCGAAGTAAT--TTGGCACCCTG
1 TGTCTCATCGA-ATAATCCAAAGTAATAATTGACACCCAG
*
2032117 TGCCTCATCGAATTAATCCAAAGTAATAAATTGACACCCAG
1 TGTCTCATCGAA-TAATCCAAAGTAAT-AATTGACACCCAG
2032158 TGTCTCATCGA
1 TGTCTCATCGA
2032169 CTCAAAGTCG
Statistics
Matches: 67, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
37 15 0.22
38 13 0.19
40 20 0.30
41 19 0.28
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (39 bp):
TGTCTCATCGAATAATCCAAAGTAATAATTGACACCCAG
Found at i:2032363 original size:24 final size:24
Alignment explanation
Indices: 2032326--2032372 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2032316 TATATATACC
2032326 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
2032350 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
2032373 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:2033204 original size:19 final size:20
Alignment explanation
Indices: 2033180--2033218 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2033170 ATTAATAAGC
2033180 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
2033199 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
2033219 CACATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:2039118 original size:21 final size:23
Alignment explanation
Indices: 2039092--2039133 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
2039082 AGGGTTTTAG
*
2039092 TTTGTTTCTTT-TT-TTTTAGGT
1 TTTGTTTATTTATTCTTTTAGGT
2039113 TTTGTTTATTTATTCTTTTAG
1 TTTGTTTATTTATTCTTTTAG
2039134 TTCTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.74
Consensus pattern (23 bp):
TTTGTTTATTTATTCTTTTAGGT
Found at i:2039513 original size:3 final size:3
Alignment explanation
Indices: 2039505--2039535 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2039495 ATTTTAATCC
2039505 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2039536 CCTTCTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2042917 original size:208 final size:208
Alignment explanation
Indices: 2042559--2042979 Score: 770
Period size: 208 Copynumber: 2.0 Consensus size: 208
2042549 GGGTTGGACC
2042559 CCTATCAGCCCCATTCCGTCGTCCTGGACACAATTGGTAAAGGCAAAAATCTTGGGTCTTGAATA
1 CCTATCAGCCCCATTCCGTCGTCCTGGACACAATTGGTAAAGGCAAAAATCTTGGGTCTTGAATA
2042624 CCCAAATTCGAGATTTACCATACACAAACAAATGTTGGAATATCTGAATCTCCTTATAAATTGTT
66 CCCAAATTCGAGATTTACCATACACAAACAAATGTTGGAATATCTGAATCTCCTTATAAATTGTT
*
2042689 ATCTTACCATATATAAGTTTGAGACCGAATACCACCATTAAGAAAAGAAAAGGAACGGTATTCTT
131 ACCTTACCATATATAAGTTTGAGACCGAATACCACCATTAAGAAAAGAAAAGGAACGGTATTCTT
* *
2042754 TGTGATTAGGGGG
196 TGTCATTAGGGCG
2042767 CCTATCAGCCCCATTCCGTCGTCCTGGACACAATTGGTAAAGGCAAAAATCTTGGGTCTTGAATA
1 CCTATCAGCCCCATTCCGTCGTCCTGGACACAATTGGTAAAGGCAAAAATCTTGGGTCTTGAATA
* * *
2042832 TCCAAATTCGAGATTTACCGTACACAAACAAATGTTGGGATATCTGAATCTCCTTATAAATTGTT
66 CCCAAATTCGAGATTTACCATACACAAACAAATGTTGGAATATCTGAATCTCCTTATAAATTGTT
* *
2042897 ACCTTACTATATATAAGTTTGAGACCGAATACCACCATTAAGAAAAGAAAAGGAATGGTATTCTT
131 ACCTTACCATATATAAGTTTGAGACCGAATACCACCATTAAGAAAAGAAAAGGAACGGTATTCTT
2042962 TGTCATTAGGGCG
196 TGTCATTAGGGCG
2042975 CCTAT
1 CCTAT
2042980 AACTGAAGAA
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
208 205 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (208 bp):
CCTATCAGCCCCATTCCGTCGTCCTGGACACAATTGGTAAAGGCAAAAATCTTGGGTCTTGAATA
CCCAAATTCGAGATTTACCATACACAAACAAATGTTGGAATATCTGAATCTCCTTATAAATTGTT
ACCTTACCATATATAAGTTTGAGACCGAATACCACCATTAAGAAAAGAAAAGGAACGGTATTCTT
TGTCATTAGGGCG
Found at i:2054803 original size:29 final size:29
Alignment explanation
Indices: 2054771--2054827 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2054761 AATTGTATGT
2054771 TTTTA-AAGGATT-AAATCAAAATTTTATCA
1 TTTTAGAAGG-TTAAAAT-AAAATTTTATCA
*
2054800 TTTTAGAAGGTTAAAATATAATTTTATC
1 TTTTAGAAGGTTAAAATAAAATTTTATC
2054828 TTTACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (29 bp):
TTTTAGAAGGTTAAAATAAAATTTTATCA
Found at i:2059844 original size:14 final size:15
Alignment explanation
Indices: 2059825--2059857 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2059815 AGATAATGTT
*
2059825 TTATATT-TTAAAAA
1 TTATATTATAAAAAA
2059839 TTATATTATAAAAAA
1 TTATATTATAAAAAA
2059854 TTAT
1 TTAT
2059858 CAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATATTATAAAAAA
Found at i:2062297 original size:57 final size:57
Alignment explanation
Indices: 2062209--2062456 Score: 320
Period size: 57 Copynumber: 4.4 Consensus size: 57
2062199 TTAATGTCCC
* * *
2062209 TTGCCACCAGAACTTGGACCTGAATTGG-GGTTGACAGCATCAGTAAATGCATGACCT
1 TTGCCTCCTGAACTTGGACCTGAATTGGTGG-TGACAGCATCACTAAATGCATGACCT
** *
2062266 TTGCCTCCTTCACTTGGACCTGAATTGG-GGTTGACAGCATCAGTAAATGCATGACCT
1 TTGCCTCCTGAACTTGGACCTGAATTGGTGG-TGACAGCATCACTAAATGCATGACCT
* * **
2062323 TTGCCTCCTGGACTTGGACCTGAGTTGGTGGTGACAGCATCACTATGTGCATGACCT
1 TTGCCTCCTGAACTTGGACCTGAATTGGTGGTGACAGCATCACTAAATGCATGACCT
* * * *
2062380 TTGCCACCAGAACTTGGCCCTGAATTGGTGGTGACAGAATCACTAAATGCATGACCT
1 TTGCCTCCTGAACTTGGACCTGAATTGGTGGTGACAGCATCACTAAATGCATGACCT
* *
2062437 TTGCCTCCTGGACTAGGACC
1 TTGCCTCCTGAACTTGGACC
2062457 ACTGGTTTTG
Statistics
Matches: 167, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
57 165 0.99
58 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (57 bp):
TTGCCTCCTGAACTTGGACCTGAATTGGTGGTGACAGCATCACTAAATGCATGACCT
Found at i:2066107 original size:15 final size:15
Alignment explanation
Indices: 2066089--2066117 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2066079 TGAGTGAGTA
2066089 TGAAAAATCGATTTT
1 TGAAAAATCGATTTT
2066104 TGAAAAATCGATTT
1 TGAAAAATCGATTT
2066118 ACTTTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (15 bp):
TGAAAAATCGATTTT
Found at i:2066422 original size:3 final size:3
Alignment explanation
Indices: 2066414--2066550 Score: 274
Period size: 3 Copynumber: 45.7 Consensus size: 3
2066404 TTCTCATAAG
2066414 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
2066462 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
2066510 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
2066551 TAGCCAATAA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 134 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2068641 original size:43 final size:44
Alignment explanation
Indices: 2068594--2068677 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
2068584 CACAGATGAG
*
2068594 GTCTTACATGT-AATC-AAATATCGATGCC-ACTGTCCCAGACAGA
1 GTCTTACACGTAAATCTAAAT-TCGATGCCGAC-GTCCCAGACAGA
*
2068637 GTCTTACACGTAAATCTCAATTCGATGCCGACGTCCCAGAC
1 GTCTTACACGTAAATCTAAATTCGATGCCGACGTCCCAGAC
2068678 GTGGTTGTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
43 10 0.28
44 21 0.58
45 5 0.14
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (44 bp):
GTCTTACACGTAAATCTAAATTCGATGCCGACGTCCCAGACAGA
Found at i:2068742 original size:15 final size:16
Alignment explanation
Indices: 2068722--2068751 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2068712 TAACAAAAAG
2068722 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
2068737 AACCCAATAACCCAC
1 AACCCAATAACCCAC
2068752 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:2070069 original size:18 final size:18
Alignment explanation
Indices: 2070048--2070096 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2070038 TTATTATAAC
2070048 TATTTATATATATCATCT
1 TATTTATATATATCATCT
*
2070066 TATTATATATTTAT-ATCT
1 TATT-TATATATATCATCT
2070084 TA-TTATATATATC
1 TATTTATATATATC
2070097 TATATATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATATATATCATCT
Found at i:2070069 original size:33 final size:35
Alignment explanation
Indices: 2070032--2070096 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2070022 CCTATTATTA
2070032 TTATTAT-TA-TTATAAC-TATTTATATATATCATC
1 TTATTATATATTTATAACTTA-TTATATATATCATC
*
2070065 TTATTATATATTTATATCTTATTATATATATC
1 TTATTATATATTTATAACTTATTATATATATC
2070097 TATATATCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 2 0.07
35 17 0.61
36 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (35 bp):
TTATTATATATTTATAACTTATTATATATATCATC
Found at i:2082564 original size:43 final size:43
Alignment explanation
Indices: 2082516--2082818 Score: 178
Period size: 43 Copynumber: 7.1 Consensus size: 43
2082506 AAAACAAAGC
2082516 CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
* * * * * ** *
2082559 CTTGCCTTCCA--GCATTAACAGCGAAGCAGATCGAA-AA-CAAAT
1 CTTGCCTT-CATTG-GTT-ACAGTGGAGCTGGTTAAAGAAGCAGAT
2082601 CATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
1 C-TTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
* ** * * * ** *
2082645 CTTGCCTTCCA--GCATTAACAACGAAGCAGATCGAA-AA-CAAAT
1 CTTGCCTT-CATTG-GTT-ACAGTGGAGCTGGTTAAAGAAGCAGAT
2082687 CATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
1 C-TTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
* ** ** * * * ** *
2082731 CTTGCCTTCCTACGTTAACAACGAAGCAGATCGAA-AA-CA-AGC
1 CTTGCCTTCATTGGTT-ACAGTGGAGCTGGTTAAAGAAGCAGA-T
*
2082773 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
2082816 CTT
1 CTT
2082819 ATCTTCCTAC
Statistics
Matches: 182, Mismatches: 57, Indels: 42
0.65 0.20 0.15
Matches are distributed among these distances:
41 11 0.06
42 56 0.31
43 64 0.35
44 51 0.28
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
Found at i:2082647 original size:86 final size:86
Alignment explanation
Indices: 2082502--2082849 Score: 549
Period size: 86 Copynumber: 4.1 Consensus size: 86
2082492 ATCAGTGAAC
*
2082502 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAAGCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
2082567 CC-AGCATTAACAGCGAAGCAG
66 CCTA-CATTAACAACGAAGCAG
*
2082588 ATCGAAAACAAATCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAAGCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
2082653 CC-AGCATTAACAACGAAGCAG
66 CCTA-CATTAACAACGAAGCAG
*
2082674 ATCGAAAACAAATCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAAGCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
2082739 CCTACGTTAACAACGAAGCAG
66 CCTACATTAACAACGAAGCAG
* * **
2082760 ATCGAAAAC-AAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTATCTT
1 ATCGAAAACAAAGCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
* * *
2082824 CCTACATTGACAGCGAAGTAG
66 CCTACATTAACAACGAAGCAG
2082845 ATCGA
1 ATCGA
2082850 GGACACAAGC
Statistics
Matches: 248, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
85 72 0.29
86 175 0.71
87 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (86 bp):
ATCGAAAACAAAGCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
CCTACATTAACAACGAAGCAG
Found at i:2083040 original size:43 final size:44
Alignment explanation
Indices: 2082985--2083265 Score: 220
Period size: 43 Copynumber: 6.5 Consensus size: 44
2082975 GAAGAATTTC
*
2082985 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGACAT
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT
* * * * * *
2083029 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA-ATAA
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT
* ** *
2083071 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G-CAT
1 A-GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT
* * * * *
2083112 CAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGA-ATT
1 -AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACA-T
* *
2083157 GCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAT
1 --AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT
* * * * * *
2083203 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA-ATAA
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT
*
2083245 AGAATCTTATCTCTCTGAAGT
1 AG-ATCTTATCTCCCTGAAGT
2083266 GGCAGTAGAG
Statistics
Matches: 190, Mismatches: 34, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
41 30 0.16
42 7 0.04
43 65 0.34
44 48 0.25
45 1 0.01
46 38 0.20
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT
Found at i:2083094 original size:87 final size:87
Alignment explanation
Indices: 2082986--2083265 Score: 309
Period size: 87 Copynumber: 3.2 Consensus size: 87
2082976 AAGAATTTCA
*
2082986 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTAC
2083051 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
* ** * * * *
2083073 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G-CATCAGGTCTTATCTCCCTGAGGTT
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACAT-A-ATCCTATCTCCCTGAAGTT
* ** ** **
2083134 ACAGCGGAGTAGACCGAAGAATTGCA-
64 ACAGTGGAGCGGA-TTAA-AA-TAAAG
* *
2083160 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTAC
2083225 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
* *
2083247 AATCTTATCTCTCTGAAGT
1 GATCTTATCTCCCTGAAGT
2083266 GGCAGTAGAG
Statistics
Matches: 149, Mismatches: 34, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
83 3 0.02
84 2 0.01
85 26 0.17
86 4 0.03
87 79 0.53
88 4 0.03
89 26 0.17
90 2 0.01
91 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAATAAAG
Found at i:2083135 original size:41 final size:44
Alignment explanation
Indices: 2083073--2083184 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 44
2083063 TAAAATAAAG
* * * * *
2083073 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC-GCA-T-CA
1 GATCTTATCTCCCTGAGGTTACAGCAGAGTAGACCAGAATTGCA
* *
2083114 GGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAGGTTACAGCAGAGTAGACC--AGAATTGCA
2083160 GATCTTATCTCCCTGAGGTTACAGC
1 GATCTTATCTCCCTGAGGTTACAGC
2083185 GGAGCAGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 29 0.50
44 2 0.03
45 1 0.02
46 26 0.45
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGGTTACAGCAGAGTAGACCAGAATTGCA
Found at i:2083616 original size:15 final size:16
Alignment explanation
Indices: 2083596--2083625 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2083586 TAACAAAAAG
2083596 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
2083611 AACCCAATAACCCAC
1 AACCCAATAACCCAC
2083626 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:2084936 original size:18 final size:18
Alignment explanation
Indices: 2084915--2084963 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2084905 TTATTATAAC
2084915 TATTTATATATATCATCT
1 TATTTATATATATCATCT
*
2084933 TATTATATATTTAT-ATCT
1 TATT-TATATATATCATCT
2084951 TA-TTATATATATC
1 TATTTATATATATC
2084964 TATATATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATATATATCATCT
Found at i:2084936 original size:33 final size:35
Alignment explanation
Indices: 2084899--2084963 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2084889 ATTTGTCCTA
2084899 TTATTAT-TA-TTATAAC-TATTTATATATATCATC
1 TTATTATATATTTATAACTTA-TTATATATATCATC
*
2084932 TTATTATATATTTATATCTTATTATATATATC
1 TTATTATATATTTATAACTTATTATATATATC
2084964 TATATATCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 2 0.07
35 17 0.61
36 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (35 bp):
TTATTATATATTTATAACTTATTATATATATCATC
Found at i:2087637 original size:39 final size:37
Alignment explanation
Indices: 2087570--2087662 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
2087560 ACCAGAATGG
* *
2087570 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
2087609 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
2087646 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
2087663 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:2088788 original size:17 final size:16
Alignment explanation
Indices: 2088756--2088789 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2088746 TTGGCTATTC
*
2088756 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
2088772 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
2088789 T
1 T
2088790 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:2088837 original size:14 final size:14
Alignment explanation
Indices: 2088778--2088828 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2088768 CTTTTGTTTC
*
2088778 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
2088791 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
2088806 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
2088820 TTTTATTTC
1 TTTTATTTC
2088829 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:2088996 original size:14 final size:17
Alignment explanation
Indices: 2088977--2089013 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
2088967 ATTTATTTCT
2088977 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
2088991 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
2089008 TAATAT
1 TAATAT
2089014 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:2089874 original size:13 final size:13
Alignment explanation
Indices: 2089856--2089882 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2089846 CACAAACTAT
2089856 AAAATTTTCACAC
1 AAAATTTTCACAC
2089869 AAAATTTTCACAC
1 AAAATTTTCACAC
2089882 A
1 A
2089883 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:2097363 original size:41 final size:43
Alignment explanation
Indices: 2097297--2097386 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 43
2097287 GTGCATAAGG
*
2097297 TCTCGAGACATAGTTGTATAGTCTCGAGAC-A-TGTTCCAAAA
1 TCTCGAGACATAGTGGTATAGTCTCGAGACAATTGTTCCAAAA
* *
2097338 TCTCGAGACA-AGTGGTCATTA-TCTCGAGACAATTGTTCCTAAG
1 TCTCGAGACATAGTGGT-A-TAGTCTCGAGACAATTGTTCCAAAA
2097381 TCTCGA
1 TCTCGA
2097387 AACAGAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 5 0.12
41 20 0.48
42 3 0.07
43 14 0.33
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTCGAGACATAGTGGTATAGTCTCGAGACAATTGTTCCAAAA
Found at i:2107091 original size:3 final size:3
Alignment explanation
Indices: 2107083--2107121 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2107073 AAACAAACCT
2107083 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2107122 AGTTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2107963 original size:11 final size:11
Alignment explanation
Indices: 2107921--2107965 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
2107911 CTCCTCTCTA
*
2107921 TTCTTTTTTTT
1 TTCTTTTTGTT
2107932 TTCTTTTTGCTCT
1 TTCTTTTTG-T-T
2107945 TT-TTTTTGTT
1 TTCTTTTTGTT
2107955 TTCTTTTTGTT
1 TTCTTTTTGTT
2107966 GTTGGTTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 3 0.10
11 17 0.57
12 7 0.23
13 3 0.10
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (11 bp):
TTCTTTTTGTT
Found at i:2117124 original size:41 final size:38
Alignment explanation
Indices: 2117079--2117166 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 38
2117069 TAAAAAGTAT
* *
2117079 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAA-A-TA-AATAAATATAATAAATATATTA
2117120 TTATATT-AAAAAATAAATAAATATAATAAATATATTA
1 TTATATTAAAAAAATAAATAAATATAATAAATATATTA
*
2117157 TTGTATTAAA
1 TTATATTAAA
2117167 TATAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 26 0.60
38 4 0.09
39 1 0.02
40 5 0.12
41 7 0.16
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.39
Consensus pattern (38 bp):
TTATATTAAAAAAATAAATAAATATAATAAATATATTA
Found at i:2126348 original size:51 final size:52
Alignment explanation
Indices: 2126293--2126409 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 52
2126283 TATAAAACTT
* *
2126293 ATATATATATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-ATATAA
1 ATATATATATATAAAATACATTAATGCATTTA-CAAAAAAAGGAAATATATAA
* * * *
2126344 ATATATACATATAAAATATATTCATGCATTTACAAAAAAATGAAATATATAA
1 ATATATATATATAAAATACATTAATGCATTTACAAAAAAAGGAAATATATAA
*
2126396 GTATA-ATATA-AAAA
1 ATATATATATATAAAA
2126410 CATGGAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 32 0.57
52 20 0.36
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (52 bp):
ATATATATATATAAAATACATTAATGCATTTACAAAAAAAGGAAATATATAA
Found at i:2126675 original size:3 final size:3
Alignment explanation
Indices: 2126667--2126705 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
2126657 ATATGTAGGT
2126667 ATA ATA ATA AT- ATA A-A ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2126706 GACTAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.18
3 27 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2126689 original size:19 final size:20
Alignment explanation
Indices: 2126667--2126705 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
2126657 ATATGTAGGT
2126667 ATAATAATAAT-ATAAAATA
1 ATAATAATAATAATAAAATA
2126686 ATAATAATAATAATAAAATA
1 ATAATAATAATAATAAAATA
2126706 GACTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAATAATAATAATAAAATA
Found at i:2126933 original size:20 final size:17
Alignment explanation
Indices: 2126908--2126948 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 17
2126898 TCCCTTTTTT
2126908 AAAATCGTAAATAAGTAAAA
1 AAAATCG-AAA-AAG-AAAA
2126928 AAAATCGAAAAAGAAAA
1 AAAATCGAAAAAGAAAA
2126945 AAAA
1 AAAA
2126949 AACAGTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 3 0.14
20 7 0.33
ACGTcount: A:0.73, C:0.05, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATCGAAAAAGAAAA
Found at i:2126945 original size:18 final size:20
Alignment explanation
Indices: 2126908--2126949 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
2126898 TCCCTTTTTT
*
2126908 AAAATCGTAAATAAGTAAAA
1 AAAATCGTAAATAAGAAAAA
2126928 AAAATCG-AAA-AAGAAAAA
1 AAAATCGTAAATAAGAAAAA
2126946 AAAA
1 AAAA
2126950 ACAGTAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 3 0.14
20 7 0.33
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAATCGTAAATAAGAAAAA
Found at i:2127157 original size:17 final size:17
Alignment explanation
Indices: 2127135--2127168 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2127125 ATTATAAAAT
* *
2127135 CATATCTTCTAAGATTA
1 CATATCCTCGAAGATTA
2127152 CATATCCTCGAAGATTA
1 CATATCCTCGAAGATTA
2127169 TATTTCCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (17 bp):
CATATCCTCGAAGATTA
Found at i:2132443 original size:3 final size:3
Alignment explanation
Indices: 2132435--2132466 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2132425 ATTTCTGGGC
*
2132435 TGT TGT TGT TGC TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
2132467 GTTTCTTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.34, T:0.62
Consensus pattern (3 bp):
TGT
Found at i:2135014 original size:26 final size:26
Alignment explanation
Indices: 2134984--2135041 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
2134974 GAAATTAAAT
*
2134984 ATTTATT-TTACTTTAAAATAATATAA
1 ATTTATTATTA-TTTAAAATAAGATAA
*
2135010 ATTTAATTATTATTTAAATTAAGATAA
1 ATTT-ATTATTATTTAAAATAAGATAA
*
2135037 TTTTA
1 ATTTA
2135042 ACATGTAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.19
27 19 0.70
28 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTTATTATTATTTAAAATAAGATAA
Found at i:2135185 original size:16 final size:17
Alignment explanation
Indices: 2135164--2135197 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2135154 TGGTATAATA
2135164 TTAA-TTTTACTAAAAT
1 TTAATTTTTACTAAAAT
*
2135180 TTAATTTTTACTATAAT
1 TTAATTTTTACTAAAAT
2135197 T
1 T
2135198 ATGCACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTTTACTAAAAT
Found at i:2138870 original size:22 final size:24
Alignment explanation
Indices: 2138844--2138887 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2138834 GAAAAATATT
2138844 AAATAT-ATA-TATTTTATTTTTA
1 AAATATAATAGTATTTTATTTTTA
*
2138866 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTATTTTATTTT
2138888 AAGTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATATAATAGTATTTTATTTTTA
Found at i:2139017 original size:59 final size:59
Alignment explanation
Indices: 2138954--2139132 Score: 241
Period size: 68 Copynumber: 2.9 Consensus size: 59
2138944 TCAAGTTTGT
*
2138954 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
2139013 TTTACTAATTAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
2139078 AAA
57 AAA
* *
2139081 TTTATTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
2139133 AATAATTTGA
Statistics
Matches: 106, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
59 46 0.43
60 1 0.01
62 2 0.02
65 2 0.02
67 1 0.01
68 54 0.51
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:2139055 original size:9 final size:9
Alignment explanation
Indices: 2139043--2139070 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2139033 TTTTATTACA
2139043 ACAATTAAT
1 ACAATTAAT
2139052 ACAATTAAT
1 ACAATTAAT
2139061 ACAATTAAT
1 ACAATTAAT
2139070 A
1 A
2139071 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:2139061 original size:68 final size:68
Alignment explanation
Indices: 2138984--2139154 Score: 292
Period size: 68 Copynumber: 2.5 Consensus size: 68
2138974 TTTTGTTACA
*
2138984 ACAATTAATACAATTAATAATTTGATAAATTTACTAATTAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
2139049 AAT
66 AAT
*
2139052 ACAATTAATACAATTAATAATTTGATAAATTTATTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
2139117 AAT
66 AAT
* *
2139120 ACAATT-A-ACAATTAATAATTTGATGATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
2139155 CAATTAATTT
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 25 0.26
67 1 0.01
68 72 0.73
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
AAT
Found at i:2139166 original size:16 final size:16
Alignment explanation
Indices: 2139145--2139184 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2139135 TAATTTGATG
*
2139145 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
2139161 ATTTTAATAACAATTA
1 ATTTTAATAACAATTA
*
2139177 GTTTTAAT
1 ATTTTAAT
2139185 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:2139185 original size:22 final size:23
Alignment explanation
Indices: 2139158--2139219 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
2139148 TTACTAACAA
* * *
2139158 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
2139180 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
2139203 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
2139220 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:2148997 original size:17 final size:17
Alignment explanation
Indices: 2148975--2149014 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2148965 AAAAACTTAC
*
2148975 ATTAACCCGAACATAAA
1 ATTAACCCAAACATAAA
*
2148992 ATTAACCCAAACTTAAA
1 ATTAACCCAAACATAAA
2149009 A-TAACC
1 ATTAACC
2149015 GAATTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.20
Consensus pattern (17 bp):
ATTAACCCAAACATAAA
Found at i:2149567 original size:3 final size:3
Alignment explanation
Indices: 2149559--2149588 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2149549 TAAATAATGC
2149559 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2149589 CCATTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2156269 original size:27 final size:27
Alignment explanation
Indices: 2156231--2156284 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2156221 TATATATATA
2156231 TAACATAATTCAGTTTTTCATGGAAAG
1 TAACATAATTCAGTTTTTCATGGAAAG
2156258 TAACATAATTCAGTTTTTCATGGAAAG
1 TAACATAATTCAGTTTTTCATGGAAAG
2156285 CCCAACCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (27 bp):
TAACATAATTCAGTTTTTCATGGAAAG
Found at i:2156571 original size:52 final size:51
Alignment explanation
Indices: 2156488--2156591 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 51
2156478 TGTTCATAAA
*
2156488 CAACTCTATCAAACAACAACAATATGCTACTTTGGTGTTAGAATTGTGTGAT
1 CAACCCTATCAAACAACAACAATATGCTAC-TTGGTGTTAGAATTGTGTGAT
*
2156540 CAACCCTATCAAACAACAATAATATGCTACTTGGTGTTAGAATTGTGTGAT
1 CAACCCTATCAAACAACAACAATATGCTACTTGGTGTTAGAATTGTGTGAT
2156591 C
1 C
2156592 TGAATTTCGA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 22 0.44
52 28 0.56
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (51 bp):
CAACCCTATCAAACAACAACAATATGCTACTTGGTGTTAGAATTGTGTGAT
Found at i:2162966 original size:18 final size:18
Alignment explanation
Indices: 2162943--2162977 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2162933 TCCAATAAAA
2162943 TTTTTTTCCATATTTCAT
1 TTTTTTTCCATATTTCAT
2162961 TTTTTTTCCATATTTCA
1 TTTTTTTCCATATTTCA
2162978 AAATCTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTTCCATATTTCAT
Found at i:2163704 original size:16 final size:16
Alignment explanation
Indices: 2163685--2163737 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
2163675 GTCATTTTTG
* *
2163685 GTTTGAATTATTTCGA
1 GTTTAAATTATTTCAA
2163701 GTTTAAATTATTTCAA
1 GTTTAAATTATTTCAA
**
2163717 GTTTAAACCATTTCAA
1 GTTTAAATTATTTCAA
*
2163733 ATTTA
1 GTTTA
2163738 TATTCTAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (16 bp):
GTTTAAATTATTTCAA
Found at i:2167219 original size:18 final size:18
Alignment explanation
Indices: 2167196--2167241 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
2167186 TTTGTTCACA
* * *
2167196 GGTTTTGGTGTTGGGTGT
1 GGTTTTGGAGTTGGATGG
2167214 GGTTTTGGAGTTGGATGG
1 GGTTTTGGAGTTGGATGG
2167232 GGTTTTGGAG
1 GGTTTTGGAG
2167242 GTCTGTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.07, C:0.00, G:0.50, T:0.43
Consensus pattern (18 bp):
GGTTTTGGAGTTGGATGG
Found at i:2174941 original size:20 final size:20
Alignment explanation
Indices: 2174904--2174941 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2174894 ATAGGTATGC
*
2174904 ATGTGTTTGTAATTTGATTT
1 ATGTGTTTGTAATATGATTT
2174924 ATGTGTTT-TAAATATGAT
1 ATGTGTTTGT-AATATGAT
2174942 AAACGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (20 bp):
ATGTGTTTGTAATATGATTT
Found at i:2175434 original size:43 final size:42
Alignment explanation
Indices: 2175382--2175585 Score: 178
Period size: 43 Copynumber: 4.7 Consensus size: 42
2175372 TGTTGGTCTA
2175382 TAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTT
1 TAGCGGCGCTTC-ACCACAAACGCCACTAAAGAACCTAATCTT
* * * * * *
2175425 TAGCTGCGCTTTCCCCTCAAACGCCAC-AATAGACCCTGATCTA
1 TAGCGGCGC-TTCACCACAAACGCCACTAA-AGAACCTAATCTT
* *
2175468 TAGCGACGCTTCGACCACAAACGTCACTAAAGAACCTAATCTT
1 TAGCGGCGCTTC-ACCACAAACGCCACTAAAGAACCTAATCTT
* * * * *
2175511 CAGCGGCGTTTTCCCCACAAACGCCGCTAAAG-ACCATGATCTT
1 TAGCGGCG-CTTCACCACAAACGCCACTAAAGAACC-TAATCTT
* ** *
2175554 TAGTGGCGCTTTTTCCACAAACACCACTAAAG
1 TAGCGGCGC-TTCACCACAAACGCCACTAAAG
2175586 GCCAACACCT
Statistics
Matches: 126, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
42 8 0.06
43 110 0.87
44 8 0.06
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.22
Consensus pattern (42 bp):
TAGCGGCGCTTCACCACAAACGCCACTAAAGAACCTAATCTT
Found at i:2175502 original size:86 final size:86
Alignment explanation
Indices: 2175378--2175585 Score: 265
Period size: 86 Copynumber: 2.4 Consensus size: 86
2175368 AAGGTGTTGG
* * * *
2175378 TCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCTGCGCTTTCCCCTC
1 TCTATAGCGACGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTCAGCGGCGCTTTCCCCAC
*
2175443 AAACGCCAC-AATAGACCCTGA
66 AAACGCCACTAA-AGACCATGA
* *
2175464 TCTATAGCGACGCTTCGACCACAAACGTCACTAAAGAACCTAATCTTCAGCGGCGTTTTCCCCAC
1 TCTATAGCGACGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTCAGCGGCGCTTTCCCCAC
*
2175529 AAACGCCGCTAAAGACCATGA
66 AAACGCCACTAAAGACCATGA
* * * *** *
2175550 TCTTTAGTGGCGCTTTTTCCACAAACACCACTAAAG
1 TCTATAGCGACGCTTCGACCACAAACGCCACTAAAG
2175586 GCCAACACCT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 103 0.98
87 2 0.02
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (86 bp):
TCTATAGCGACGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTCAGCGGCGCTTTCCCCAC
AAACGCCACTAAAGACCATGA
Found at i:2175965 original size:21 final size:21
Alignment explanation
Indices: 2175936--2176004 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
2175926 TTGGACGCTA
2175936 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
2175957 CTCTACTTCCCTCGCTATAG-
1 CTCTGCTTCCCTCGCTGCAGC
2175977 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
2175998 ATCTGCT
1 CTCTGCT
2176005 CTAAGCTGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:2176058 original size:66 final size:66
Alignment explanation
Indices: 2175981--2176122 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 66
2175971 CTATAGCTCT
* *
2175981 GCTTCCCTCGCTGCAGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTAAACT
1 GCTTCTCTCGCTGCAGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTAAACC
2176044 TCA
64 TCA
** * * *
2176047 GCTTCTCTCGCTGTTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCAGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTAAACCTC
2176112 A
66 A
2176113 GCTTCTCTCG
1 GCTTCTCTCG
2176123 ATGTTGCCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.39
Consensus pattern (66 bp):
GCTTCTCTCGCTGCAGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTAAACCTC
A
Found at i:2176128 original size:66 final size:66
Alignment explanation
Indices: 2175996--2176141 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 66
2175986 CCTCGCTGCA
* * *
2175996 GCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTAAACTTCAGCTTCTCTCGCTGT
1 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGATGT
2176061 T
66 T
* *
2176062 GCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGAT
1 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTAAACCTCAGCTTCTCTCGAT
2176125 GTT
64 GTT
* *
2176128 GCCTCCGCTTTAAG
1 GCATCTGCTTTAAG
2176142 TTGTGTAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (66 bp):
GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGATGT
T
Found at i:2180798 original size:20 final size:20
Alignment explanation
Indices: 2180753--2180805 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2180743 TTAAATTAAA
*
2180753 AATTTTAGAGTTTTTATATTT
1 AATTTT-GATTTTTTATATTT
*
2180774 CATTTTGATTTTTGTAT-TTT
1 AATTTTGATTTTT-TATATTT
*
2180794 AATTTTAATTTT
1 AATTTTGATTTT
2180806 AATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (20 bp):
AATTTTGATTTTTTATATTT
Found at i:2181184 original size:15 final size:17
Alignment explanation
Indices: 2181145--2181177 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2181135 CTAACCCGAC
2181145 CCTCTTAAAACCCTAAA
1 CCTCTTAAAACCCTAAA
*
2181162 CCTCTTAAATCCCTAA
1 CCTCTTAAAACCCTAA
2181178 CTCTTAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (17 bp):
CCTCTTAAAACCCTAAA
Found at i:2181266 original size:14 final size:15
Alignment explanation
Indices: 2181247--2181277 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2181237 GACCAACCCT
2181247 TAATCCCT-AATCCA
1 TAATCCCTAAATCCA
2181261 TAATCCCTAAATCCA
1 TAATCCCTAAATCCA
2181276 TA
1 TA
2181278 TATATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCCCTAAATCCA
Found at i:2181547 original size:21 final size:21
Alignment explanation
Indices: 2181523--2181563 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2181513 CCCCCTACCC
2181523 CCTT-AACCCCTAACCCTTAAA
1 CCTTAAACCCC-AACCCTTAAA
*
2181544 CCTTAAATCCCAACCCTTAA
1 CCTTAAACCCCAACCCTTAA
2181564 TTAAACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTTAAACCCCAACCCTTAAA
Found at i:2182066 original size:41 final size:42
Alignment explanation
Indices: 2181980--2182069 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
2181970 AATGTTTTTA
* *
2181980 GCGGCGC-TTAAGCAGAAACGCCGCGAAAACCCAGAACATTT
1 GCGGCGCTTTAAGCAAAAACGCCGCGAAAACCCAGAACATTC
* * * **
2182021 GCGGCGCTTTAA-CAAAAACGCCGCTAAAACCTATATTATTC
1 GCGGCGCTTTAAGCAAAAACGCCGCGAAAACCCAGAACATTC
2182062 GCGGCGCT
1 GCGGCGCT
2182070 AATCTAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (42 bp):
GCGGCGCTTTAAGCAAAAACGCCGCGAAAACCCAGAACATTC
Found at i:2182236 original size:114 final size:114
Alignment explanation
Indices: 2182036--2182731 Score: 985
Period size: 114 Copynumber: 6.2 Consensus size: 114
2182026 GCTTTAACAA
* * * * * *
2182036 AAACGCCGCTAAAAC-CTATATTATTCGCGGCGCTAATCTAAAAACGCCATTAAAGTCACCGAAG
1 AAACGCCGCTAATACTC-ATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAG
* *
2182100 TGTCTCCAAACTACGTCGTCTGGGGTTTAGTTTTTGTGGCATTTTTATAG
65 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
2182150 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * *
2182215 GTCTCCAAACGACGTCATCTGGGTTTTAGTTTTTGCGGC---GTTA-A-
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* ** *
2182259 AAACGCCGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACGCTACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * * * * *
2182324 GTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* * *
2182373 AAACGCCGCTAATACTCATATTATTAGCAGCGCTATT-AGAAAAATGCCACTAAAGTCACCGAAG
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAG
* *
2182437 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGGGGCATTTTTATAA
65 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* *
2182487 AAATGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAATGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * *
2182552 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTACGGCATTTTTACAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* * *
2182601 AAATGCCGCTAATACTCATATTATTAGCGGCACTATTCGAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * *
2182666 TTCTTCAAACGACGTCGTCT-GGGTTTAGTTTTTGCGGCGTTTTTATAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
2182714 AAACGCCGCTAATACTCA
1 AAACGCCGCTAATACTCA
2182732 ATCGGTTGCG
Statistics
Matches: 520, Mismatches: 54, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
109 96 0.18
110 1 0.00
111 3 0.01
112 2 0.00
113 42 0.08
114 374 0.72
115 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (114 bp):
AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
Found at i:2182614 original size:228 final size:227
Alignment explanation
Indices: 2182034--2182731 Score: 996
Period size: 223 Copynumber: 3.1 Consensus size: 227
2182024 GCGCTTTAAC
* * * * *
2182034 AAAAACGCCGCTAAAAC-CTATATTATTCGCGGCGCTAATCTAAAAACGCCATTAAAGTCACCGA
1 AAAAACGCCGCTAATACTC-ATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGA
* * **
2182098 AGTGTCTCCAAACTACGTCGTCTGGGGTTTAGTTTTTGTGGCATTTTTATAGAAACGCCGCTAAT
65 AGTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTACGGCATTTTTATAGAAACGCCGCTAAT
2182163 ACTCATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGA
130 ACTCATATTATTAGCGGCGCTATT-AGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGA
* * *
2182227 CGTCATCTGGGTTTTAGTTTTTGCGGC---GT-T
194 CGTCGTCTGGGGTTTAGTTTTTGCGGCTTTTTAT
* ** *
2182257 AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACGCTACTAATGTCACCGAA
1 AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAA
* * * * *
2182322 GTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGTTTTTGTAGAAACGCCGCTAATA
66 GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTACGGCATTTTTATAGAAACGCCGCTAATA
* * *
2182387 CTCATATTATTAGCAGCGCTATTAGAAAAATGCCACTAAAGTCACCGAAGTGTCTCCAAACGACG
131 CTCATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
*
2182452 TCGTCTGGGGTTTAGTTTTTGGGGCATTTTTAT
196 TCGTCTGGGGTTTAGTTTTTGCGGC-TTTTTAT
* * *
2182485 AAAAATGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAATGCCACTAATGTCACCGAA
1 AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAA
* *
2182550 GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTACGGCATTTTTACAGAAATGCCGCTAATA
66 GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTACGGCATTTTTATAGAAACGCCGCTAATA
* * * *
2182615 CTCATATTATTAGCGGCACTATTCGAAAAACGCCACTAATGTCACCGAAGTTTCTTCAAACGACG
131 CTCATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
2182680 TCGTCT-GGGTTTAGTTTTTGCGGCGTTTTTAT
196 TCGTCTGGGGTTTAGTTTTTGCGGC-TTTTTAT
*
2182712 AGAAACGCCGCTAATACTCA
1 AAAAACGCCGCTAATACTCA
2182732 ATCGGTTGCG
Statistics
Matches: 421, Mismatches: 47, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
222 1 0.00
223 194 0.46
224 1 0.00
227 43 0.10
228 182 0.43
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (227 bp):
AAAAACGCCGCTAATACTCATATTATTAGCGGCGCTAATCAAAAAACGCCACTAATGTCACCGAA
GTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTACGGCATTTTTATAGAAACGCCGCTAATA
CTCATATTATTAGCGGCGCTATTAGAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
TCGTCTGGGGTTTAGTTTTTGCGGCTTTTTAT
Found at i:2183708 original size:18 final size:18
Alignment explanation
Indices: 2183687--2183731 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
2183677 CATTCTTCTC
2183687 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
2183705 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
2183723 CCCTTTCCC
1 CCCTTTCCC
2183732 GTTTCGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCTTTCCCCTTCTCCTT
Found at i:2184909 original size:35 final size:34
Alignment explanation
Indices: 2184870--2184935 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
2184860 CAAACGCTAG
* *
2184870 AAAACATTTTCCAGTAAGTCATTTTACAGAAATGT
1 AAAACATTTTCCA-AAAATCATTTTACAGAAATGT
*
2184905 AAAACATTTTCCAAAAATCATTTTACGGAAA
1 AAAACATTTTCCAAAAATCATTTTACAGAAA
2184936 ACATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAAAAATCATTTTACAGAAATGT
Found at i:2185697 original size:29 final size:29
Alignment explanation
Indices: 2185631--2185703 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
2185621 GTCACAAATT
* * *
2185631 AGACTTATTTGATTCTTTTTAATAATATAA
1 AGACTAATTTGA-TCTATTTAATAATAGAA
*
2185661 AGACTAATTTGATCTATTTAATAATAGAG
1 AGACTAATTTGATCTATTTAATAATAGAA
* *
2185690 CGATTAATTTGATC
1 AGACTAATTTGATC
2185704 CAATCCTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 26 0.70
30 11 0.30
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (29 bp):
AGACTAATTTGATCTATTTAATAATAGAA
Found at i:2186791 original size:60 final size:63
Alignment explanation
Indices: 2186659--2186800 Score: 184
Period size: 60 Copynumber: 2.3 Consensus size: 63
2186649 TTTGGACAAA
* * *
2186659 AAAGCCAAGTTTAGGTACCTAATTGGACCAAGAAAAAAATCTTTAGGTACTAAATTGAACCTT
1 AAAGCCAAGTTCAGGTACCTAATTAGACCAAGAAAAAAATCTTTAGGTACCAAATTGAACCTT
* * *
2186722 AAAGTCAAGTTCAAGTACCTAATTAGACCAA-AAAAGAA-C-TT-GGATACCAAATTGAACCTT
1 AAAGCCAAGTTCAGGTACCTAATTAGACCAAGAAAAAAATCTTTAGG-TACCAAATTGAACCTT
*
2186782 CAAGCCAAGTTCAGGTACC
1 AAAGCCAAGTTCAGGTACC
2186801 AAAATGTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.03
60 33 0.48
61 1 0.01
62 6 0.09
63 27 0.39
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (63 bp):
AAAGCCAAGTTCAGGTACCTAATTAGACCAAGAAAAAAATCTTTAGGTACCAAATTGAACCTT
Found at i:2187274 original size:12 final size:12
Alignment explanation
Indices: 2187259--2187283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2187249 AAAAAAAGAG
2187259 TTAAAAGTATCA
1 TTAAAAGTATCA
2187271 TTAAAAGTATCA
1 TTAAAAGTATCA
2187283 T
1 T
2187284 GGAGGTCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTAAAAGTATCA
Found at i:2201714 original size:20 final size:19
Alignment explanation
Indices: 2201689--2201736 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
2201679 TCAAAACACG
*
2201689 TTTATAATAATATAACTAAT
1 TTTATAATAAAATAA-TAAT
2201709 TTTATATATAAAATAATAAT
1 TTTATA-ATAAAATAATAAT
*
2201729 TTAATAAT
1 TTTATAAT
2201737 TTTTCAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTATAATAAAATAATAAT
Found at i:2203035 original size:6 final size:6
Alignment explanation
Indices: 2202994--2203032 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2202984 AGGCCACGGT
* *
2202994 CACAGC CACAGC CACAGC CACAGC CACAAC CACGGC CAC
1 CACAGC CACAGC CACAGC CACAGC CACAGC CACAGC CAC
2203033 GGCAACGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
CACAGC
Found at i:2209541 original size:16 final size:16
Alignment explanation
Indices: 2209522--2209578 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
2209512 TTTAATTAAA
*
2209522 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
2209538 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
2209554 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
2209570 ATTAAAATT
1 ATTAAAATT
2209579 GTATCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:2209703 original size:34 final size:35
Alignment explanation
Indices: 2209631--2209709 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
2209621 ATTTAACATT
* * *
2209631 TTGTTAGTAAAATTATTAATTGTTAATTGTATTAA
1 TTGTTACTAAAATTATAAATTATTAATTGTATTAA
2209666 TTGTTACTAAAATTATCAAATTATTAA-T-TATTAA
1 TTGTTACTAAAATTAT-AAATTATTAATTGTATTAA
2209700 TTGTTACTAA
1 TTGTTACTAA
2209710 CATTTTGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
34 16 0.40
35 16 0.40
36 8 0.20
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (35 bp):
TTGTTACTAAAATTATAAATTATTAATTGTATTAA
Found at i:2209718 original size:83 final size:85
Alignment explanation
Indices: 2209624--2209791 Score: 295
Period size: 83 Copynumber: 2.0 Consensus size: 85
2209614 TTGTAAAATT
*
2209624 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATTA
1 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTACTAAAATTATCAAATTA
2209689 T-T-AATTATTAATTGTTAC
66 TATAAATTATTAATTGTTAC
*
2209707 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTAGTAAAATTATCAAATTA
1 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTACTAAAATTATCAAATTA
2209772 TATCAAATTATTAATTGTTA
66 TAT-AAATTATTAATTGTTA
2209792 ATTGTATTAA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
83 64 0.80
84 1 0.01
86 15 0.19
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.48
Consensus pattern (85 bp):
TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATGAATTGTTACTAAAATTATCAAATTA
TATAAATTATTAATTGTTAC
Found at i:2215248 original size:6 final size:6
Alignment explanation
Indices: 2215237--2215275 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
2215227 AGTTTGTGTT
*
2215237 GTGATG GTGATG GTGATG GTGATG GTGATG GTGGTG GTG
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTG
2215276 CGGTAATCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.54, T:0.33
Consensus pattern (6 bp):
GTGATG
Found at i:2215794 original size:31 final size:31
Alignment explanation
Indices: 2215754--2215814 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2215744 TTGGACAAAA
*
2215754 AAGCTAAGTTCAAGTA-ATAATTTGAATCAAG
1 AAGCGAAGTTCAAGTACATAATTTG-ATCAAG
* *
2215785 AAGCGAAGTTCAGGTACTTAATTTGATCAA
1 AAGCGAAGTTCAAGTACATAATTTGATCAA
2215815 AATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (31 bp):
AAGCGAAGTTCAAGTACATAATTTGATCAAG
Found at i:2238891 original size:22 final size:22
Alignment explanation
Indices: 2238859--2238902 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2238849 TGTATAAAAA
*
2238859 GAGCTTAAATACGAATGAACTT
1 GAGCTTAAATACGAATAAACTT
* *
2238881 GAGCTTGAATATGAATAAACTT
1 GAGCTTAAATACGAATAAACTT
2238903 AATTGTGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (22 bp):
GAGCTTAAATACGAATAAACTT
Found at i:2254169 original size:30 final size:29
Alignment explanation
Indices: 2254112--2254193 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
2254102 AAATTGTGGA
* *
2254112 TTTAATTTTTATACTTTT-AATTGATCAAT
1 TTTAATCTTTATATTTTTGAA-TGATCAAT
2254141 TTTAATCTTTATATTTTTTGAATGATCAAT
1 TTTAATCTTTATA-TTTTTGAATGATCAAT
*
2254171 TTTAGTCTTTATACTTTTTGAAT
1 TTTAATCTTTATA-TTTTTGAAT
2254194 TATGAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 12 0.26
30 33 0.70
31 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTAATCTTTATATTTTTGAATGATCAAT
Found at i:2261234 original size:21 final size:20
Alignment explanation
Indices: 2261209--2261256 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2261199 ACATGTCATT
2261209 AAATAAATATTAAAAATTTAA
1 AAAT-AATATTAAAAATTTAA
* *
2261230 AAATATTATTACAAATTTAA
1 AAATAATATTAAAAATTTAA
2261250 AAA-AATA
1 AAATAATA
2261257 GTTCGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATATTAAAAATTTAA
Found at i:2266921 original size:3 final size:3
Alignment explanation
Indices: 2266913--2266947 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2266903 AATAAATAGG
*
2266913 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2266948 GGACTAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2266929 original size:12 final size:12
Alignment explanation
Indices: 2266907--2266948 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
2266897 AATATAAATA
2266907 AATAGGTAATAAT
1 AATA-GTAATAAT
2266920 AATAGTAATAAT
1 AATAGTAATAAT
*
2266932 AATAATAATAAT
1 AATAGTAATAAT
2266944 AATAG
1 AATAG
2266949 GACTAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:2268430 original size:50 final size:49
Alignment explanation
Indices: 2268362--2268737 Score: 206
Period size: 50 Copynumber: 7.7 Consensus size: 49
2268352 TGCGTCGCCT
* * * *
2268362 GGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGACGG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATG-CGG
* * ** * *
2268412 GGAAGTGAGGTTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-AT-CGCC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGCG-G
** * * * * * *
2268460 AAAAATAAGATTCACCGTTGTGGCTTCGATATTTTAAATTGCAATGTCGG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATG-CGG
* ** ** * * *
2268510 GGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCACTAC-AT-CGCT
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGCG-G
* * * * *
2268558 AGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATG-CGG
* ** **** * *
2268608 GGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCTGCTG-TAT-CGCC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGCG-G
* * ** * * * *
2268656 AGAAGTAAGATTCATCGCTGTGGCTTCGATCTTTTAAATTGCAATGTCAG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATG-CGG
*
2268706 GGAAGTGAGATTCGCTGTTGTAGCTTCAATCT
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCT
2268738 GCTCCGCTGT
Statistics
Matches: 222, Mismatches: 92, Indels: 24
0.66 0.27 0.07
Matches are distributed among these distances:
47 6 0.03
48 86 0.39
49 12 0.05
50 113 0.51
51 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (49 bp):
GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGCGG
Found at i:2268497 original size:98 final size:98
Alignment explanation
Indices: 2268320--2268794 Score: 709
Period size: 98 Copynumber: 4.8 Consensus size: 98
2268310 GCCGAGGAAA
* * * * **
2268320 AGATTCGCCGTTG-AGGCTTCAATCTGTTCCGCTGCGTCGCCTGGAAGTAAGATTTGCCGTTGTG
1 AGATTCGCTGTTGTA-GCTTCAATCTGCTCCGCTGCATCGCC-AGAAGTAAGATTCACCGTTGTG
*
2268384 GCTTCGATCTTTTAAATTGCAATGACGGGGAAGTG
64 GCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * * * * *
2268419 AGGTTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAAAAATAAGATTCACCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
*
2268484 TTCGATATTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * *
2268517 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTACATCGCTAGAAGTAAGATTCACCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
2268582 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * * *
2268615 AGATTCGCTGTTGTAGCTTCAATCTGCTCTGCTGTATCGCCAGAAGTAAGATTCATCGCTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
*
2268680 TTCGATCTTTTAAATTGCAATGTCAGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* *
2268713 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGTATCGCCAGAAGTAAGATTCGCCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
2268778 TTCGATCTTTTAAATTG
66 TTCGATCTTTTAAATTG
2268795 TAGACTATGG
Statistics
Matches: 345, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
98 308 0.89
99 36 0.10
100 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (98 bp):
AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
Found at i:2268766 original size:48 final size:48
Alignment explanation
Indices: 2268511--2268785 Score: 153
Period size: 48 Copynumber: 5.6 Consensus size: 48
2268501 CAATGTCGGG
* * *
2268511 GAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCACT-ACATCGCTA
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTCAACTGA-ATCGCCA
* * * * ** * * **
2268559 GAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAAT-GTCGGG
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTCAACTG-AATCG-C-CA
* ** *
2268609 GAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCTGCTGTATCGCCA
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTCAACTGAATCGCCA
* * * * ** * * *
2268657 GAAGTAAGATTC-ATCGCTGTGGCTTCGATCTTTTAAATTGCAAT-GTCA
1 GAAGTAAGATTCGCT-GTTGTAGCTTCAATCTGCTCAACTG-AATCGCCA
* ** *
2268705 GGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGTATCGCCA
1 --GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTCAACTGAATCGCCA
* * *
2268755 GAAGTAAGATTCGCCGTTGTGGCTTCGATCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCT
2268786 TTTAAATTGT
Statistics
Matches: 160, Mismatches: 56, Indels: 22
0.67 0.24 0.09
Matches are distributed among these distances:
47 1 0.01
48 87 0.54
49 10 0.06
50 61 0.38
51 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (48 bp):
GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGCTCAACTGAATCGCCA
Found at i:2281536 original size:3 final size:3
Alignment explanation
Indices: 2281528--2281574 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2281518 AATAAATAGG
*
2281528 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2281575 GGACTAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2284532 original size:13 final size:13
Alignment explanation
Indices: 2284510--2284544 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
2284500 AAGAAAAGAA
*
2284510 ATCCACCTACCTT
1 ATCCAACTACCTT
2284523 ATCCAACTACCTT
1 ATCCAACTACCTT
2284536 ATCCAACTA
1 ATCCAACTA
2284545 AGAAGACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (13 bp):
ATCCAACTACCTT
Found at i:2290898 original size:21 final size:24
Alignment explanation
Indices: 2290848--2290903 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 24
2290838 GGATAATTAA
2290848 CTTAATTAA-TTTAAACTAATCATG
1 CTTAATTAACTTTAAACTAA-CATG
2290872 CTTTAATTAACTTTAAACT-A-AT-
1 C-TTAATTAACTTTAAACTAACATG
2290894 CTTAATTAAC
1 CTTAATTAAC
2290904 ATAAGTGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.30
22 1 0.03
23 2 0.07
24 1 0.03
25 9 0.30
26 8 0.27
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
CTTAATTAACTTTAAACTAACATG
Found at i:2290902 original size:25 final size:25
Alignment explanation
Indices: 2290843--2290902 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
2290833 ATTAGGGATA
2290843 ATTAACTTAATTAATTTAAACTAATC
1 ATTAA-TTAATTAATTTAAACTAATC
***
2290869 ATGCTTTAATTAACTTTAAACTAATC
1 ATTAATTAATTAA-TTTAAACTAATC
2290895 -TTAATTAA
1 ATTAATTAA
2290903 CATAAGTGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTAATTAATTAATTTAAACTAATC
Found at i:2292839 original size:41 final size:42
Alignment explanation
Indices: 2292710--2292849 Score: 129
Period size: 42 Copynumber: 3.4 Consensus size: 42
2292700 GAACCTCATG
* * * **
2292710 AGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTCGTA
1 AGAGCTGAACAGAAACCCATAAGAGTTAAACAAAAGCTCGTA
* * * * * * *
2292752 AAAGCTGAACGGAAACCCATAAGGGTTAAACAGAAGCACATT
1 AGAGCTGAACAGAAACCCATAAGAGTTAAACAAAAGCTCGTA
* * *
2292794 AGAGCTGAAC-GAAACTCATATGAGTTAAACAAAAGCTCGTG
1 AGAGCTGAACAGAAACCCATAAGAGTTAAACAAAAGCTCGTA
*
2292835 AGAGCTAAACAGAAA
1 AGAGCTGAACAGAAA
2292850 GAAACACAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 33 0.41
42 47 0.59
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (42 bp):
AGAGCTGAACAGAAACCCATAAGAGTTAAACAAAAGCTCGTA
Found at i:2298482 original size:2 final size:2
Alignment explanation
Indices: 2298475--2298503 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2298465 TGCATAGTTT
2298475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2298504 TTCAAGTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2305283 original size:17 final size:18
Alignment explanation
Indices: 2305252--2305285 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2305242 GTCTCACATC
*
2305252 ATTTTCATATCAAGATAG
1 ATTTTCATATAAAGATAG
2305270 ATTTT-ATATAAAGATA
1 ATTTTCATATAAAGATA
2305286 TTTACATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTTTCATATAAAGATAG
Found at i:2306068 original size:20 final size:21
Alignment explanation
Indices: 2306026--2306068 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2306016 TATGCGAGTA
2306026 AAAATGAAAATAATATATTTT
1 AAAATGAAAATAATATATTTT
*
2306047 AAAA-GAAACTAATA-ATTATT
1 AAAATGAAAATAATATATT-TT
2306067 AA
1 AA
2306069 TAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 13 0.65
21 4 0.20
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAATGAAAATAATATATTTT
Found at i:2315071 original size:17 final size:17
Alignment explanation
Indices: 2315024--2315073 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
2315014 TTTCTATCAC
*
2315024 ATTAAATTTAAATATATA
1 ATTAAATATAAATAT-TA
2315042 ATTAAATAT-AATATT-
1 ATTAAATATAAATATTA
2315057 ATTATAATATAAATATT
1 ATTA-AATATAAATATT
2315074 TAAAATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.14
16 6 0.21
17 11 0.38
18 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAATATAAATATTA
Found at i:2315516 original size:15 final size:16
Alignment explanation
Indices: 2315496--2315525 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2315486 AACACTTAAT
2315496 TTTTTTTTAA-ATAAG
1 TTTTTTTTAACATAAG
2315511 TTTTTTTTAACATAA
1 TTTTTTTTAACATAA
2315526 TGTGTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTTTTTAACATAAG
Found at i:2317202 original size:29 final size:28
Alignment explanation
Indices: 2317139--2317226 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
2317129 GATGTTAAAA
*
2317139 ATAATTTTTAGTTATTTTTAGTCA-TTTAT
1 ATAATTTTTAGTTATTTTTA-T-ATTTTTT
*
2317168 AAAATTTTTAGTTATTTTTATATTTTTT
1 ATAATTTTTAGTTATTTTTATATTTTTT
* * * *
2317196 GGTAATTTTATAATTGTTTTTCTATTTTTT
1 -ATAATTTT-TAGTTATTTTTATATTTTTT
2317226 A
1 A
2317227 AATAATGTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 25 0.52
30 17 0.35
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (28 bp):
ATAATTTTTAGTTATTTTTATATTTTTT
Found at i:2322386 original size:17 final size:19
Alignment explanation
Indices: 2322352--2322386 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2322342 GATTTGACCA
2322352 GATAATATTAATATTTTGG
1 GATAATATTAATATTTTGG
2322371 GATAATA-TAA-ATTTTG
1 GATAATATTAATATTTTG
2322387 TCTATTCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (19 bp):
GATAATATTAATATTTTGG
Found at i:2324880 original size:17 final size:17
Alignment explanation
Indices: 2324855--2324888 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2324845 TCTTTAAAAT
2324855 TCTCATAATTTAATATC
1 TCTCATAATTTAATATC
* *
2324872 TCTCGTAATTTATTATC
1 TCTCATAATTTAATATC
2324889 ATGTGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (17 bp):
TCTCATAATTTAATATC
Found at i:2325101 original size:15 final size:15
Alignment explanation
Indices: 2325082--2325123 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2325072 TTCTCATGTT
*
2325082 ATTTTTT-ATTCATA
1 ATTTTTTAATTAATA
2325096 ATTTTTTAATTAATA
1 ATTTTTTAATTAATA
*
2325111 ATTACTTTAATTA
1 ATT-TTTTAATTA
2325124 TATTCATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 8 0.33
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTTTAATTAATA
Found at i:2327306 original size:31 final size:32
Alignment explanation
Indices: 2327249--2327325 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
2327239 ACTTAGCAAT
*
2327249 TATTCTCACATTGGCGACCTGAATTAAACAAC
1 TATTCTCACATTGGCAACCTGAATTAAACAAC
* *
2327281 TATTCTTACATTGG-AACTTGAATTAAACAAC
1 TATTCTCACATTGGCAACCTGAATTAAACAAC
* *
2327312 TATTCCCACGTTGG
1 TATTCTCACATTGG
2327326 GGATTGAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 26 0.67
32 13 0.33
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (32 bp):
TATTCTCACATTGGCAACCTGAATTAAACAAC
Found at i:2327601 original size:74 final size:74
Alignment explanation
Indices: 2327470--2327607 Score: 174
Period size: 74 Copynumber: 1.9 Consensus size: 74
2327460 GGGGGCATGG
* **
2327470 CCCCCAAGGTTTAAATTTTTTGTAATTTATCCCTTTTTAGATAAACTATGATTCTCTCAAAAATA
1 CCCCCAAGGTTTAAATTTTTTGTAATTTATCCCTTTGTAGATAAACTATGACCCTCTCAAAAATA
2327535 TAAGTAGGT
66 TAAGTAGGT
* * *
2327544 CCCCCAAGGTTTAAGA-TTTTTGTAATTT-CCTCCTTTGTATATATACTAT-AGCCCTCTCAAAA
1 CCCCCAAGGTTTAA-ATTTTTTGTAATTTATC-CCTTTGTAGATAAACTATGA-CCCTCTCAAAA
2327606 AT
63 AT
2327608 TGATTGTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
73 2 0.04
74 52 0.95
75 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (74 bp):
CCCCCAAGGTTTAAATTTTTTGTAATTTATCCCTTTGTAGATAAACTATGACCCTCTCAAAAATA
TAAGTAGGT
Found at i:2333036 original size:184 final size:184
Alignment explanation
Indices: 2332641--2333154 Score: 684
Period size: 184 Copynumber: 2.8 Consensus size: 184
2332631 ACCTGAATGT
* *
2332641 ACATAAAAAATATACATTAGATACCATACGACAATCGAACCGGAACTAGAGACATAACGACCATA
1 ACATGAAAAATATACATTAGATACCATACGACAATCGAACCGGAACTAGAGCCATAACGACCATA
*
2332706 AACACAAATTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGCATTAAGTGCATCAT
66 AACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCG-ATTAAGTGCATCAT
2332771 CACTAAGATATTTAGGAAATATTTAACAGAACCGGAATCTAAGGTTCTTAATTGC
130 CACTAAGATATTTAGGAAATATTTAACAGAACCGGAATCTAAGGTTCTTAATTGC
* * *
2332826 ACATGAAAAATATACATTCGATACCATATGACAATCGAACCAGAACTCA-AGCCATAACGACCAT
1 ACATGAAAAATATACATTAGATACCATACGACAATCGAACCGGAACT-AGAGCCATAACGACCAT
* * *
2332890 AAACACAATTTATATGCACTTTTGTATCCCACAACGATCCAGCAGATACTG-TGTAAGTGCAT-A
65 AAACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGAT-TAAGTGCATCA
* * *
2332953 GTCACTAAGA-ACTTTAGGAAATATTTAA-AGGAACTGGCATCTAAGGTTCTTGATTGC
129 -TCACTAAGATA-TTTAGGAAATATTTAACA-GAACCGGAATCTAAGGTTCTTAATTGC
*
2333010 ACATGAAAAATATACATTAGATACCATAGGGA-AATCGAACCGGAACTAGAGCCATAACGACCAT
1 ACATGAAAAATATACATTAGATACCATA-CGACAATCGAACCGGAACTAGAGCCATAACGACCAT
* * * * * * * *
2333074 TAGCACAATTTATGTGCAGTTTTGTATCCAACAATAAACCAGCAAATACC-ACATAAGTGCAT-A
65 AAACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGA-TTAAGTGCATCA
* *
2333137 GTCATTAACATATTTAGG
129 -TCACTAAGATATTTAGG
2333155 CCACTTATAC
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
183 5 0.02
184 178 0.61
185 107 0.37
186 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (184 bp):
ACATGAAAAATATACATTAGATACCATACGACAATCGAACCGGAACTAGAGCCATAACGACCATA
AACACAATTTATATGCACTTTTGTATCCCACAACAAACCAGCAGATACCGATTAAGTGCATCATC
ACTAAGATATTTAGGAAATATTTAACAGAACCGGAATCTAAGGTTCTTAATTGC
Found at i:2341988 original size:8 final size:9
Alignment explanation
Indices: 2341977--2342024 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
2341967 AATTCAAAAT
2341977 AATTTT-AA
1 AATTTTAAA
2341985 AATTTTAAA
1 AATTTTAAA
2341994 ATATTTATAAA
1 A-ATTT-TAAA
2342005 AATTTTAAA
1 AATTTTAAA
*
2342014 AATTCTAAA
1 AATTTTAAA
2342023 AA
1 AA
2342025 ATATATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 8 0.22
11 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTTAAA
Found at i:2341994 original size:19 final size:20
Alignment explanation
Indices: 2341983--2342026 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
2341973 AAATAATTTT
2341983 AAAATTTTAAAATATTTATA
1 AAAATTTTAAAATATTTATA
2342003 AAAATTTTAAAA-ATTCTA-A
1 AAAATTTTAAAATATT-TATA
2342022 AAAAT
1 AAAAT
2342027 ATATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTTAAAATATTTATA
Found at i:2342016 original size:29 final size:28
Alignment explanation
Indices: 2341977--2342035 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
2341967 AATTCAAAAT
* * *
2341977 AATTTTAAAATTTTAAAATATTTATAAA
1 AATTTTAAAATTCTAAAAAATATATAAA
2342005 AATTTTAAAAATTCTAAAAAATATATAAA
1 AATTTT-AAAATTCTAAAAAATATATAAA
2342034 AA
1 AA
2342036 AAAGTTAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTTTAAAATTCTAAAAAATATATAAA
Found at i:2342024 original size:10 final size:9
Alignment explanation
Indices: 2341963--2342036 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
2341953 AAAGTTACAA
*
2341963 AAAAAATTC
1 AAAAAATTT
2341972 AAAATAATTT
1 AAAA-AATTT
* *
2341982 TAAAATTTT
1 AAAAAATTT
*
2341991 AAAATATTT
1 AAAAAATTT
2342000 ATAAAAATTT
1 A-AAAAATTT
*
2342010 TAAAAATTCT
1 AAAAAATT-T
2342020 AAAAAATATAT
1 AAAAAAT-T-T
2342031 AAAAAA
1 AAAAAA
2342037 AAGTTAAGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
9 22 0.43
10 21 0.41
11 8 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAAAATTT
Found at i:2347970 original size:13 final size:14
Alignment explanation
Indices: 2347945--2347976 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
2347935 CTTTTCCTTA
2347945 ATAATTAAAAAAAC
1 ATAATTAAAAAAAC
2347959 ATAATT-AAAAAAC
1 ATAATTAAAAAAAC
2347972 ATAAT
1 ATAAT
2347977 AACTTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAATTAAAAAAAC
Found at i:2348576 original size:38 final size:38
Alignment explanation
Indices: 2348525--2348600 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
2348515 ATGATGATTA
*
2348525 GTGTTCACCTTCTATACTATGTCGTGGATTCGAGTTAT
1 GTGTTCACCTTCTAGACTATGTCGTGGATTCGAGTTAT
* *
2348563 GTGTTCACCTTCTAGACTATGTTGTGGATTCGTGTTAT
1 GTGTTCACCTTCTAGACTATGTCGTGGATTCGAGTTAT
2348601 AGTACCAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (38 bp):
GTGTTCACCTTCTAGACTATGTCGTGGATTCGAGTTAT
Found at i:2354126 original size:37 final size:37
Alignment explanation
Indices: 2354065--2354210 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
2354055 TACGTATGAT
* *
2354065 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
2354100 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
2354137 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
2354174 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
2354211 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:2354227 original size:46 final size:46
Alignment explanation
Indices: 2354174--2354396 Score: 284
Period size: 52 Copynumber: 4.6 Consensus size: 46
2354164 TAAGTGTAGC
* **
2354174 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
2354220 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
2354266 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
2354318 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
2354370 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
2354397 AGTACTCAAA
Statistics
Matches: 164, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
46 69 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 90 0.55
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:2354293 original size:52 final size:52
Alignment explanation
Indices: 2354217--2354390 Score: 285
Period size: 52 Copynumber: 3.3 Consensus size: 52
2354207 TAGCTAAAGC
* * *
2354217 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
2354270 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
2354322 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
2354374 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
2354391 ATCAGAAGTA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 96 0.84
53 18 0.16
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:2360741 original size:16 final size:17
Alignment explanation
Indices: 2360706--2360744 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2360696 AATGCAGGTG
2360706 AAAAATAAAATTATATA
1 AAAAATAAAATTATATA
* *
2360723 AAAAATATATTTATA-A
1 AAAAATAAAATTATATA
2360739 AAAAAT
1 AAAAAT
2360745 TGGTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATAAAATTATATA
Found at i:2363033 original size:14 final size:15
Alignment explanation
Indices: 2363010--2363052 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
2363000 ATTTTAGAAG
*
2363010 TTTTTATATATTCTA
1 TTTTTATATATTATA
2363025 TTTTT-TATATTATA
1 TTTTTATATATTATA
2363039 TTTTATGATATATT
1 TTTT-T-ATATATT
2363053 TCAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
17 6 0.25
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTATATATTATA
Found at i:2366236 original size:21 final size:21
Alignment explanation
Indices: 2366212--2366265 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2366202 GTTTTAAAAA
*
2366212 TTAAAAATTATTAA-ATTTATT
1 TTAAAAATT-TTAATATATATT
2366233 TTAAAAATTTTAATATATATT
1 TTAAAAATTTTAATATATATT
* *
2366254 TTTAATATTTTA
1 TTAAAAATTTTA
2366266 TGATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAAAATTTTAATATATATT
Done.