Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 85 of 205
Found at i:25212910 original size:7 final size:7
Alignment explanation
Indices: 25212898--25212965 Score: 50
Period size: 7 Copynumber: 9.3 Consensus size: 7
25212888 TTTAAATTAA
25212898 AAACCTT
1 AAACCTT
25212905 AAACCTT
1 AAACCTT
25212912 AAAACCTT
1 -AAACCTT
*
25212920 AAAACCCT
1 -AAACCTT
*
25212928 AAACCCT
1 AAACCTT
25212935 AAACCCTT
1 AAA-CCTT
25212943 -AA-CTT
1 AAACCTT
*
25212948 AAAACCCT
1 -AAACCTT
25212956 AAACCCTT
1 AAA-CCTT
25212964 AA
1 AA
25212966 CTTAAAAACC
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 3 0.06
7 24 0.47
8 24 0.47
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCTT
Found at i:25212915 original size:15 final size:15
Alignment explanation
Indices: 25212898--25212965 Score: 70
Period size: 14 Copynumber: 4.6 Consensus size: 15
25212888 TTTAAATTAA
*
25212898 AAACCTT-AAACCTT
1 AAACCTTAAAACCCT
25212912 AAAACCTTAAAACCCT
1 -AAACCTTAAAACCCT
*
25212928 AAACCCT-AAACCCT
1 AAACCTTAAAACCCT
*
25212942 TAA-CTTAAAACCCT
1 AAACCTTAAAACCCT
25212956 AAACCCTTAA
1 AAA-CCTTAA
25212966 CTTAAAAACC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.05
14 18 0.41
15 13 0.30
16 11 0.25
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCTTAAAACCCT
Found at i:25212918 original size:8 final size:8
Alignment explanation
Indices: 25212897--25212965 Score: 58
Period size: 8 Copynumber: 9.2 Consensus size: 8
25212887 CTTTAAATTA
25212897 AAAACCTT
1 AAAACCTT
25212905 -AAACCTT
1 AAAACCTT
25212912 AAAACCTT
1 AAAACCTT
*
25212920 AAAACCCT
1 AAAACCTT
*
25212928 -AAACCCT
1 AAAACCTT
*
25212935 AAACCCTT
1 AAAACCTT
25212943 --AA-CTT
1 AAAACCTT
*
25212948 AAAACCCT
1 AAAACCTT
*
25212956 AAACCCTT
1 AAAACCTT
25212964 AA
1 AA
25212966 CTTAAAAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 16 0.33
8 29 0.59
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAACCTT
Found at i:25216568 original size:124 final size:126
Alignment explanation
Indices: 25216269--25216585 Score: 453
Period size: 124 Copynumber: 2.5 Consensus size: 126
25216259 CCCAAACATG
* *
25216269 CTACTGTAGCAAAAGCACGTCCACGTGGGCG-AGATTTCACAAATTCTTCTCATATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCA-ATTTCACAAATTCTTCTCATAAAGCATCCTG
* *
25216333 CTTGCAGCGTTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
25216395 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
25216460 TTGAAGCG-TTTTTTAAACTATTTTCTCAGAAAC-TCAACTCGAAATTA-TTTTTCAAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTC-AGGAC
* * * * * * * *
25216519 TTATTGTAGCAAAAGCGCGTACACGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
25216584 TT
66 TT
25216586 TGATTTTATC
Statistics
Matches: 173, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
123 6 0.03
124 77 0.45
125 22 0.13
126 68 0.39
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:25218208 original size:10 final size:9
Alignment explanation
Indices: 25218187--25218265 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
25218177 TAATTAATTT
25218187 TTTTTATAA
1 TTTTTATAA
25218196 TTTTTATACA
1 TTTTTATA-A
*
25218206 TTTTAATAA
1 TTTTTATAA
25218215 -TTTT-TAA
1 TTTTTATAA
*
25218222 TTTTAAAATAA
1 TTTT--TATAA
25218233 TTTTTATTAA
1 TTTTTA-TAA
25218243 CTTTTT-TCAA
1 -TTTTTAT-AA
25218253 TTTTTA-AA
1 TTTTTATAA
25218261 TTTTT
1 TTTTT
25218266 TAAAAAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
7 3 0.05
8 13 0.23
9 16 0.28
10 13 0.23
11 12 0.21
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25222158 original size:52 final size:51
Alignment explanation
Indices: 25222060--25222164 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
25222050 TTATAAAACT
* * *
25222060 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
* * * *
25222111 TATACATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATA
25222163 TA
1 TA
25222165 ATATAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.56
52 20 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
Found at i:25222728 original size:19 final size:21
Alignment explanation
Indices: 25222690--25222728 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
25222680 CCTTTTTTAA
*
25222690 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
25222711 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
25222729 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:25222946 original size:24 final size:22
Alignment explanation
Indices: 25222899--25222948 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
25222889 TACAAATTAA
25222899 ATCTTTAAGATTACAAAATCAT
1 ATCTTTAAGATTACAAAATCAT
* *
25222921 ATCTTCTAAGATTGCATATATCAT
1 ATCTT-TAAGATTACA-AAATCAT
25222945 ATCT
1 ATCT
25222949 AAGATTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (22 bp):
ATCTTTAAGATTACAAAATCAT
Found at i:25224470 original size:13 final size:14
Alignment explanation
Indices: 25224447--25224476 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
25224437 AAAATTCGAC
25224447 TAATCTATTTAAAA
1 TAATCTATTTAAAA
25224461 TAAT-TATTTAAAA
1 TAATCTATTTAAAA
25224474 TAA
1 TAA
25224477 AAATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTATTTAAAA
Found at i:25224748 original size:20 final size:20
Alignment explanation
Indices: 25224723--25224771 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25224713 AACACAAATG
25224723 TATCGATACATAAAATCATA
1 TATCGATACATAAAATCATA
* * *
25224743 TATCGATACATCAAGTCGTA
1 TATCGATACATAAAATCATA
25224763 TATCGATAC
1 TATCGATAC
25224772 TTGAAGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAAATCATA
Found at i:25231244 original size:99 final size:98
Alignment explanation
Indices: 25231138--25231382 Score: 287
Period size: 99 Copynumber: 2.5 Consensus size: 98
25231128 TGATACTTAC
* * *
25231138 CCACAAAGGATTTTAAGGAGATTAGCCAAAAAGGCTTCCTAAATAATACGCCACAGAGGCTTTTC
1 CCACAAAGGATTTTAA-AAGATTAGCCAAAAAGGCTTCCTAGATAATACACCACAGAGGCTTTTC
* * *
25231203 AAAGATTAGCCACAAATGCTTCCTAGAA-AAAGCA
65 AAACATTAGCCACAAAGGCTTCCCA-AATAAAGCA
** * *
25231237 CCACAAAGTCTTTTTAAAAGATTA-ACAACAAAGGCTTCCCAGATAATACACCACAGAGGCTTTT
1 CCACAAAG-GATTTTAAAAGATTAGCCAA-AAAGGCTTCCTAGATAATACACCACAGAGGCTTTT
* * *
25231301 CAAACATTAGCCGCAAAGGCTTCCCAAATAATGCG
64 CAAACATTAGCCACAAAGGCTTCCCAAATAAAGCA
* * *
25231336 CCACAGAGGGTTTTCAAAAGATTAGCCACAAAGGCTTCCTAGATAAT
1 CCACAAAGGATTTT-AAAAGATTAGCCAAAAAGGCTTCCTAGATAAT
25231383 GTCGTGTTTG
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
98 9 0.07
99 105 0.86
100 8 0.07
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (98 bp):
CCACAAAGGATTTTAAAAGATTAGCCAAAAAGGCTTCCTAGATAATACACCACAGAGGCTTTTCA
AACATTAGCCACAAAGGCTTCCCAAATAAAGCA
Found at i:25231382 original size:50 final size:49
Alignment explanation
Indices: 25231156--25231383 Score: 258
Period size: 49 Copynumber: 4.6 Consensus size: 49
25231146 GATTTTAAGG
* * * *
25231156 AGATTAGCCAAAAAGGCTTCCTAAATAATACGCCACAGAGGCTTTTCAA
1 AGATTAGCCACAAAGGCTTCCTAGATAATGCACCACAGAGGCTTTTCAA
* * * * * *
25231205 AGATTAGCCACAAATGCTTCCTAGAAAAAGCACCACAAAGTCTTTTTAAA
1 AGATTAGCCACAAAGGCTTCCTAGATAATGCACCACAGAGGC-TTTTCAA
* * * *
25231255 AGATTAACAACAAAGGCTTCCCAGATAATACACCACAGAGGCTTTTCAA
1 AGATTAGCCACAAAGGCTTCCTAGATAATGCACCACAGAGGCTTTTCAA
* * * * * *
25231304 ACATTAGCCGCAAAGGCTTCCCAAATAATGCGCCACAGAGGGTTTTCAAA
1 AGATTAGCCACAAAGGCTTCCTAGATAATGCACCACAGAGGCTTTTC-AA
25231354 AGATTAGCCACAAAGGCTTCCTAGATAATG
1 AGATTAGCCACAAAGGCTTCCTAGATAATG
25231384 TCGTGTTTGA
Statistics
Matches: 145, Mismatches: 32, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
49 78 0.54
50 67 0.46
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (49 bp):
AGATTAGCCACAAAGGCTTCCTAGATAATGCACCACAGAGGCTTTTCAA
Found at i:25231606 original size:50 final size:51
Alignment explanation
Indices: 25231508--25231608 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 51
25231498 AAATGTATCA
* *
25231508 TGATCATAGTCATTCTACATATATGCCACACTGGCATTTTCTCTTGTTTAT
1 TGATCATAGTCATTCCACATATATGCCACACTGGCATTTTCTCATGTTTAT
25231559 TGATCATAGTCATTCCACATATA-GCCACACTGGCATTTTCTCATGTTTAT
1 TGATCATAGTCATTCCACATATATGCCACACTGGCATTTTCTCATGTTTAT
25231609 GGTTCTGGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 26 0.54
51 22 0.46
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.41
Consensus pattern (51 bp):
TGATCATAGTCATTCCACATATATGCCACACTGGCATTTTCTCATGTTTAT
Found at i:25249227 original size:30 final size:30
Alignment explanation
Indices: 25249146--25249229 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
25249136 CTCGGGAATA
* * * *
25249146 AGTTACTCACACAAGCTGATAGTATGTCAG
1 AGTTGCTCACACAAGCTGACATTACGTCAG
* *
25249176 GGTTGCTCACACAACCTGACATTACCGT-AG
1 AGTTGCTCACACAAGCTGACATTA-CGTCAG
25249206 AGTTGCTCACACAAGCTGACATTA
1 AGTTGCTCACACAAGCTGACATTA
25249230 TATCGAGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
AGTTGCTCACACAAGCTGACATTACGTCAG
Found at i:25250515 original size:29 final size:29
Alignment explanation
Indices: 25250482--25250597 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
25250472 GTTAATTGGG
25250482 CCATGTAGGCCACACGGGCATGTGTGAGA
1 CCATGTAGGCCACACGGGCATGTGTGAGA
*
25250511 CCATGT-GGACCATACGGGCATGTGTGAGA
1 CCATGTAGG-CCACACGGGCATGTGTGAGA
* * **
25250540 CCATGTGGGCTACACGAACATGTGTGAGA
1 CCATGTAGGCCACACGGGCATGTGTGAGA
* *
25250569 CCATGTAGGCCACACAGGCGTGTGTGAGA
1 CCATGTAGGCCACACGGGCATGTGTGAGA
25250598 TCGTGTGCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
28 2 0.03
29 70 0.95
30 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.34, T:0.19
Consensus pattern (29 bp):
CCATGTAGGCCACACGGGCATGTGTGAGA
Found at i:25253923 original size:102 final size:102
Alignment explanation
Indices: 25253745--25253942 Score: 283
Period size: 102 Copynumber: 1.9 Consensus size: 102
25253735 TGGACTTTTC
* * * * *
25253745 TGTTGGGGATATTCTAAAAATTTGAGAATTTTCGAATGTTTTTCTCGAGAAGTTGCTGGGGTTGG
1 TGTTGGGGATATTCTAAAAATTAGAGAATTTTCAAATGCTTTTCCCGAGAAGTTGCTGGGGTTGC
25253810 CTTCAATTAGGGAGGTTGAGTTTGGTATTGAATCTTT
66 CTTCAATTAGGGAGGTTGAGTTTGGTATTGAATCTTT
* * * *
25253847 TGTTGTGGATATTTTGACAATTAGAGAATTTTCAAATGCTTTTCCCGAGAAGTTGCT-GGGTATG
1 TGTTGGGGATATTCTAAAAATTAGAGAATTTTCAAATGCTTTTCCCGAGAAGTTGCTGGGGT-TG
25253911 CCTTCAGA-TAGGGAGGTTGAGTTTGGTATTGA
65 CCTTCA-ATTAGGGAGGTTGAGTTTGGTATTGA
25253943 GATTTTGTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 4 0.05
102 80 0.94
103 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.39
Consensus pattern (102 bp):
TGTTGGGGATATTCTAAAAATTAGAGAATTTTCAAATGCTTTTCCCGAGAAGTTGCTGGGGTTGC
CTTCAATTAGGGAGGTTGAGTTTGGTATTGAATCTTT
Found at i:25259945 original size:26 final size:26
Alignment explanation
Indices: 25259906--25259956 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25259896 GTTTTGAAAC
25259906 TGATACATGCTATGATATTCTAAAAT
1 TGATACATGCTATGATATTCTAAAAT
* *
25259932 TGATATATGTTATGATATTCTAAAA
1 TGATACATGCTATGATATTCTAAAA
25259957 CTATTATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (26 bp):
TGATACATGCTATGATATTCTAAAAT
Found at i:25268384 original size:21 final size:21
Alignment explanation
Indices: 25268360--25268401 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25268350 AATTCAATAT
25268360 AATTCACATT-CAATTTAGTCC
1 AATTC-CATTGCAATTTAGTCC
*
25268381 AATTCCTTTGCAATTTAGTCC
1 AATTCCATTGCAATTTAGTCC
25268402 CTAAGCTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTCCATTGCAATTTAGTCC
Found at i:25270328 original size:21 final size:21
Alignment explanation
Indices: 25270304--25270343 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25270294 TGGTTTATAA
*
25270304 GTTATAAGCTAAGTATGATAT
1 GTTATAAGCTAAGCATGATAT
**
25270325 GTTATTTGCTAAGCATGAT
1 GTTATAAGCTAAGCATGAT
25270344 CTGGATCTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (21 bp):
GTTATAAGCTAAGCATGATAT
Found at i:25279768 original size:17 final size:17
Alignment explanation
Indices: 25279746--25279780 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25279736 AGAAGTATAC
*
25279746 ATTTTCATTCCATTTTT
1 ATTTTCATTACATTTTT
25279763 ATTTTCATTACATTTTT
1 ATTTTCATTACATTTTT
25279780 A
1 A
25279781 GGTTAGTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTCATTACATTTTT
Found at i:25285530 original size:27 final size:28
Alignment explanation
Indices: 25285490--25285694 Score: 178
Period size: 27 Copynumber: 7.7 Consensus size: 28
25285480 ATCTGCACTA
* *
25285490 AAATACCC-CTATAGGGTAGAAGGACCA
1 AAATACCCTCTATAGGGTAGAATGACCG
25285517 AAATACCCTC-ATAGGGTA-AATGACCG
1 AAATACCCTCTATAGGGTAGAATGACCG
* * * *
25285543 AAATA-CATCTATAAGGTAGAATAACTG
1 AAATACCCTCTATAGGGTAGAATGACCG
*
25285570 AAATACCC-CTATAGGGTAGAATGATCG
1 AAATACCCTCTATAGGGTAGAATGACCG
*
25285597 AAATACCC-CCATAGGGTAGAATGACCG
1 AAATACCCTCTATAGGGTAGAATGACCG
* * * *
25285624 AAATACCCTCGA-AGGG-AAAATTACCA
1 AAATACCCTCTATAGGGTAGAATGACCG
* * * * *
25285650 AAATACCC-CTAAAAGGTAAAATTACCA
1 AAATACCCTCTATAGGGTAGAATGACCG
*
25285677 AAATACCCTCGA-AGGGTA
1 AAATACCCTCTATAGGGTA
25285695 AAATTATCGT
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.03
26 36 0.24
27 102 0.68
28 6 0.04
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (28 bp):
AAATACCCTCTATAGGGTAGAATGACCG
Found at i:25285574 original size:53 final size:53
Alignment explanation
Indices: 25285490--25285696 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 53
25285480 ATCTGCACTA
* ** *
25285490 AAATACCCCTATAGGGTAGAAGGACCAAAATACCCTC-ATAGGGTAAATGACCG
1 AAATACCCCTATAAGGTAGAATAACCGAAATACCCTCGA-AGGGTAAATGACCG
** * * *
25285543 AAATACATCTATAAGGTAGAATAACTGAAATACCC-CTATAGGGTAGAATGATCG
1 AAATACCCCTATAAGGTAGAATAACCGAAATACCCTCGA-AGGGTA-AATGACCG
* * * * * *
25285597 AAATACCCCCATAGGGTAGAATGACCGAAATACCCTCGAAGGGAAAATTACCA
1 AAATACCCCTATAAGGTAGAATAACCGAAATACCCTCGAAGGGTAAATGACCG
* * * *
25285650 AAATACCCCTAAAAGGTAAAATTACCAAAATACCCTCGAAGGGTAAA
1 AAATACCCCTATAAGGTAGAATAACCGAAATACCCTCGAAGGGTAAA
25285697 ATTATCGTTA
Statistics
Matches: 125, Mismatches: 26, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.65
54 41 0.33
55 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (53 bp):
AAATACCCCTATAAGGTAGAATAACCGAAATACCCTCGAAGGGTAAATGACCG
Found at i:25285681 original size:107 final size:107
Alignment explanation
Indices: 25285490--25285684 Score: 257
Period size: 107 Copynumber: 1.8 Consensus size: 107
25285480 ATCTGCACTA
* * * * *
25285490 AAATACCCCTATAGGGTAGAAGGACCAAAATACCCTCATAGGGTAAATGACCGAAATACATCTAT
1 AAATACCCCCATAGGGTAGAAGGACCAAAATACCCTCATAGGGAAAATGACCAAAATACACCTAA
* **
25285555 AAGGTAGAATAACTGAAATACCCCTATAGGGTAGAATGATCG
66 AAGGTAAAATAACCAAAATACCCCTATAGGGTAGAATGATCG
* * * *
25285597 AAATACCCCCATAGGGTAGAATGACCGAAATACCCTCGA-AGGGAAAATTACCAAAATACCCCTA
1 AAATACCCCCATAGGGTAGAAGGACCAAAATACCCTC-ATAGGGAAAATGACCAAAATACACCTA
*
25285661 AAAGGTAAAATTACCAAAATACCC
65 AAAGGTAAAATAACCAAAATACCC
25285685 TCGAAGGGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 73 0.99
108 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (107 bp):
AAATACCCCCATAGGGTAGAAGGACCAAAATACCCTCATAGGGAAAATGACCAAAATACACCTAA
AAGGTAAAATAACCAAAATACCCCTATAGGGTAGAATGATCG
Found at i:25285693 original size:80 final size:80
Alignment explanation
Indices: 25285489--25285696 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
25285479 TATCTGCACT
* *
25285489 AAAATACCCCTATAGGGTAGAAGGACCAAAATACCCTCATAGGGTAAATGACCGAAATACATCTA
1 AAAATACCCCTATAGGGTAGAATGACCAAAATACCCTCATAGGGTAAATGACCGAAATACACCTA
* * * *
25285554 TAAGGTAGAATAACT
66 GAAGGGAAAATAACC
* * * *
25285569 GAAATACCCCTATAGGGTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATAC-CCT
1 AAAATACCCCTATAGGGTAGAATGACCAAAATACCCTCATAGGGTA-AATGACCGAAATACACCT
* *
25285633 CGAAGGGAAAATTACC
65 AGAAGGGAAAATAACC
* * * *
25285649 AAAATACCCCTAAAAGGTAAAATTACCAAAATACCCTCGA-AGGGTAAA
1 AAAATACCCCTATAGGGTAGAATGACCAAAATACCCTC-ATAGGGTAAA
25285697 ATTATCGTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 89 0.84
81 15 0.14
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (80 bp):
AAAATACCCCTATAGGGTAGAATGACCAAAATACCCTCATAGGGTAAATGACCGAAATACACCTA
GAAGGGAAAATAACC
Found at i:25285693 original size:107 final size:107
Alignment explanation
Indices: 25285490--25285712 Score: 252
Period size: 107 Copynumber: 2.1 Consensus size: 107
25285480 ATCTGCACTA
* * * * *
25285490 AAATACCCCTATAGGGTAGAAGGACCAAAATACCCTCATAGGGTAAATGACCGAAATACATCTAT
1 AAATACCCCCATAGGGTAGAAGGACCAAAATACCCTCATAGGGAAAATGACCAAAATACACCTAA
* ** * *
25285555 AAGGTAGAATAACTGAAATACCCCTATAGGGTAGAATGATCG
66 AAGGTAAAATAACCAAAATACCCCGATAGGGTAAAATGATCG
* * * *
25285597 AAATACCCCCATAGGGTAGAATGACCGAAATACCCTCGA-AGGGAAAATTACCAAAATACCCCTA
1 AAATACCCCCATAGGGTAGAAGGACCAAAATACCCTC-ATAGGGAAAATGACCAAAATACACCTA
* *
25285661 AAAGGTAAAATTACCAAAATACCCTCGA-AGGGTAAAATTATCG
65 AAAGGTAAAATAACCAAAATACCC-CGATAGGGTAAAATGATCG
**
25285704 TTATACCCC
1 AAATACCCC
25285713 TAGGAGATGA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
107 93 0.97
108 3 0.03
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.20
Consensus pattern (107 bp):
AAATACCCCCATAGGGTAGAAGGACCAAAATACCCTCATAGGGAAAATGACCAAAATACACCTAA
AAGGTAAAATAACCAAAATACCCCGATAGGGTAAAATGATCG
Found at i:25290186 original size:27 final size:27
Alignment explanation
Indices: 25290154--25290495 Score: 400
Period size: 27 Copynumber: 12.7 Consensus size: 27
25290144 GGAATGGGTC
*
25290154 TAAAATGACCAAAATAGCCC-CGAAGGG
1 TAAAATGACCGAAATA-CCCTCGAAGGG
* * *
25290181 TGAAATGACCAAAATACCCTCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
25290208 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
25290235 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
25290262 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
25290289 TAAAATGACTAAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
25290316 TAAAATGAACGAAATACTCC-CGAACGG
1 TAAAATGACCGAAATAC-CCTCGAAGGG
* * *
25290343 TAAAATGATCGAAATACCCCCGAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
25290370 TAAAATGACTGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** * * *
25290397 TAAAATGACTAAAATATCCTTGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
25290424 TAAAATGAATGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* **
25290451 TAAAATAATTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
25290478 TAAAATGGCCGAAATACC
1 TAAAATGACCGAAATACC
25290496 TCCAAAGCAT
Statistics
Matches: 273, Mismatches: 39, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.02
27 266 0.97
28 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:25290726 original size:26 final size:26
Alignment explanation
Indices: 25290686--25290761 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
25290676 TTGCCACATA
* *
25290686 CACTGTTACTTGCAGCTTTGTTGCAT
1 CACTATTACTGGCAGCTTTGTTGCAT
* * *
25290712 TACTATTACTGGCAGCGTTGCTGCAT
1 CACTATTACTGGCAGCTTTGTTGCAT
*
25290738 CATTATTACTGGCAGCTTTGTTGC
1 CACTATTACTGGCAGCTTTGTTGC
25290762 GATATTGGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (26 bp):
CACTATTACTGGCAGCTTTGTTGCAT
Found at i:25290914 original size:28 final size:28
Alignment explanation
Indices: 25290868--25290958 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
25290858 ACTGCATTGT
* *
25290868 ACTGTTACTATCTTCGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
* *
25290896 TCTGTTACTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTATATTGGGCTAAGG-CC-CAC
*
25290926 ACTGCTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTATATTGGGCTAAGGCCCAC
25290954 ACTGT
1 ACTGT
25290959 ACTGCTACTG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.49
29 4 0.08
30 23 0.43
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (28 bp):
ACTGTTACTATATTGGGCTAAGGCCCAC
Found at i:25290942 original size:30 final size:30
Alignment explanation
Indices: 25290868--25290955 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
25290858 ACTGCATTGT
* *
25290868 ACTGTTACTATCTTCGGCTAAGG-CC-CAC
1 ACTGTTACTATATTGGGCTAAGGCCCACAC
* *
25290896 TCTGTTACTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTATATTGGGCTAAGGCCCACAC
*
25290926 ACTGCTACTATATTGGGCTAAGGCCCACAC
1 ACTGTTACTATATTGGGCTAAGGCCCACAC
25290956 TGTACTGCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 19 0.37
29 2 0.04
30 30 0.59
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (30 bp):
ACTGTTACTATATTGGGCTAAGGCCCACAC
Found at i:25290977 original size:33 final size:30
Alignment explanation
Indices: 25290883--25290985 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 30
25290873 TACTATCTTC
* * *
25290883 GGCTAAGG-CC-CACTCTGTTACTGTATTG
1 GGCTAAGGCCCACACACTGCTACTGAATTG
25290911 GGCTAAGGCCCACACACTGCTACT-ATATTG
1 GGCTAAGGCCCACACACTGCTACTGA-ATTG
*
25290941 GGCTAAGGCCCACACTGTACTGCTACTGAATAG
1 GGCTAAGGCCCACAC---ACTGCTACTGAATTG
*
25290974 GGCTCAGGCCCA
1 GGCTAAGGCCCA
25290986 GACTATTACT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.13
29 2 0.03
30 29 0.46
33 23 0.37
34 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (30 bp):
GGCTAAGGCCCACACACTGCTACTGAATTG
Found at i:25299997 original size:26 final size:26
Alignment explanation
Indices: 25299949--25300033 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
25299939 GCATTACCCT
* * *
25299949 TAATGTGGAATTCTGTCATGACGATC
1 TAATGTGGAAGTCTATCAGGACGATC
*
25299975 TAATGTGGAAGTCCATCAGGACGATCC
1 TAATGTGGAAGTCTATCAGGACGAT-C
* **
25300002 TAACTGTGGAAGTCTACCAGGACTCTC
1 TAA-TGTGGAAGTCTATCAGGACGATC
25300029 TAATG
1 TAATG
25300034 CCAAATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 23 0.47
27 8 0.16
28 18 0.37
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (26 bp):
TAATGTGGAAGTCTATCAGGACGATC
Found at i:25300012 original size:28 final size:26
Alignment explanation
Indices: 25299968--25300033 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 26
25299958 ATTCTGTCAT
*
25299968 GACGATCTAATGTGGAAGTCCATCAG
1 GACGATCTAATGTGGAAGTCCACCAG
*
25299994 GACGATCCTAACTGTGGAAGTCTACCAG
1 GACGAT-CTAA-TGTGGAAGTCCACCAG
**
25300022 GACTCTCTAATG
1 GACGATCTAATG
25300034 CCAAATTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.24
27 8 0.24
28 18 0.53
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (26 bp):
GACGATCTAATGTGGAAGTCCACCAG
Found at i:25302604 original size:6 final size:6
Alignment explanation
Indices: 25302582--25302606 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25302572 ATGAAAATGG
25302582 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
25302607 CTTGCAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:25302779 original size:26 final size:26
Alignment explanation
Indices: 25302750--25302822 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 26
25302740 AATTTTCTCG
25302750 AAATTTTACCAGGGGTAAAATTATCA
1 AAATTTTACCAGGGGTAAAATTATCA
25302776 AAATTTTACC-GGAGGTAAAATTATCA
1 AAATTTTACCAGG-GGTAAAATTATCA
* *
25302802 AAATTTTA-TAGGGTTAAAATT
1 AAATTTTACCAGGGGTAAAATT
25302823 GGGGTGAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 10 0.23
26 33 0.77
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATTATCA
Found at i:25304153 original size:48 final size:48
Alignment explanation
Indices: 25304101--25304199 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
25304091 TTCAATCTTT
25304101 TTAATAAAACTATCATTTTGTTCTCCATTTGTCTTTCTTATCACAATA
1 TTAATAAAACTATCATTTTGTTCTCCATTTGTCTTTCTTATCACAATA
*
25304149 TTAATAAAACTATCATTTTGTTCTCCCTTTGTCTTTCTTATCACAATA
1 TTAATAAAACTATCATTTTGTTCTCCATTTGTCTTTCTTATCACAATA
25304197 TTA
1 TTA
25304200 CAATTATAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.48
Consensus pattern (48 bp):
TTAATAAAACTATCATTTTGTTCTCCATTTGTCTTTCTTATCACAATA
Found at i:25309944 original size:13 final size:13
Alignment explanation
Indices: 25309926--25309950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25309916 TAATGGTATA
25309926 TTGAATCCATGAT
1 TTGAATCCATGAT
25309939 TTGAATCCATGA
1 TTGAATCCATGA
25309951 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:25311162 original size:47 final size:47
Alignment explanation
Indices: 25311109--25311521 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
25311099 TTAGGATTCT
25311109 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
25311156 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
25311205 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25311252 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25311299 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25311346 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
25311393 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
25311440 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
25311487 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25311522 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:25316145 original size:16 final size:16
Alignment explanation
Indices: 25316119--25316161 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
25316109 GTTTTTACTT
25316119 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAGGGTTA
*
25316136 TTTTGATTTAGGGTTG
1 TTTTGATTTAGGGTTA
*
25316152 TTTAGATTTA
1 TTTTGATTTA
25316162 AAATTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.56
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:25316409 original size:14 final size:14
Alignment explanation
Indices: 25316392--25316435 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25316382 GATTTATGAG
25316392 TATTTAAATATGTT
1 TATTTAAATATGTT
*
25316406 TATTTAAATATTGTG
1 TATTTAAATA-TGTT
* *
25316421 TGTTCAAATATGTT
1 TATTTAAATATGTT
25316435 T
1 T
25316436 GCCATTTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (14 bp):
TATTTAAATATGTT
Found at i:25316752 original size:30 final size:30
Alignment explanation
Indices: 25316718--25316776 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
25316708 TGTTTTTCAC
25316718 GTTGTATTAAATTGTTTGGTCATTGCCTAT
1 GTTGTATTAAATTGTTTGGTCATTGCCTAT
**
25316748 GTTGTATTAAATTGTTTGGTTGTTGCCTA
1 GTTGTATTAAATTGTTTGGTCATTGCCTA
25316777 CCTTTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.08, G:0.22, T:0.51
Consensus pattern (30 bp):
GTTGTATTAAATTGTTTGGTCATTGCCTAT
Found at i:25320595 original size:39 final size:39
Alignment explanation
Indices: 25320467--25320597 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 39
25320457 AACATGTTTT
* *
25320467 TGAGTATTTTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATACTTGAATGTTATGTGATTATA
* * *
25320506 TGAATATTGTGATATATGA-TTAAATCTTATGTGATTATA
1 TGAGTATTGTGATATAT-ACTTGAATGTTATGTGATTATA
*
25320545 TGAGTATTGTGATATATACTTGAATGTTATGTGTTTATA
1 TGAGTATTGTGATATATACTTGAATGTTATGTGATTATA
* *
25320584 TGTGTAATGTGATA
1 TGAGTATTGTGATA
25320598 CATGCTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 78 0.99
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATACTTGAATGTTATGTGATTATA
Found at i:25320883 original size:50 final size:50
Alignment explanation
Indices: 25320824--25320977 Score: 308
Period size: 50 Copynumber: 3.1 Consensus size: 50
25320814 GATGTGAGCA
25320824 GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
1 GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
25320874 GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
1 GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
25320924 GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
1 GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
25320974 GTGT
1 GTGT
25320978 TATTGTTATT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 104 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (50 bp):
GTGTGGTTCCAAAGGGTGATCCAAGCAAGTCTTTTTCCGTTATTTCATAG
Found at i:25326095 original size:3 final size:3
Alignment explanation
Indices: 25326072--25326140 Score: 68
Period size: 3 Copynumber: 23.3 Consensus size: 3
25326062 TCAACTTGTC
* * * * *
25326072 TCT TCT CCT TCT TTT TTT TCT TCT TCT TCT TCT TCT TCT TC- TCC TCC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
25326119 TCC TCC TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT T
25326141 TTTTTCTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:25328246 original size:8 final size:8
Alignment explanation
Indices: 25328233--25328328 Score: 51
Period size: 8 Copynumber: 12.1 Consensus size: 8
25328223 TTAACATACA
25328233 TATTTAAT
1 TATTTAAT
25328241 TATTT-A-
1 TATTTAAT
25328247 TATTTAAT
1 TATTTAAT
* *
25328255 AATTTAAAACA
1 TATTT--AA-T
25328266 TATTTAAT
1 TATTTAAT
25328274 TATTT-A-
1 TATTTAAT
25328280 TATTTAAT
1 TATTTAAT
*
25328288 AATTTAAT
1 TATTTAAT
*
25328296 CTA-TTATTT
1 -TATTTA-AT
* *
25328305 TAATAAAT
1 TATTTAAT
25328313 TATTTAA-
1 TATTTAAT
25328320 TATTTAAT
1 TATTTAAT
25328328 T
1 T
25328329 TAATTTTAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
6 10 0.15
7 11 0.17
8 33 0.50
9 6 0.09
10 2 0.03
11 4 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTTAAT
Found at i:25328268 original size:33 final size:35
Alignment explanation
Indices: 25328221--25328294 Score: 134
Period size: 33 Copynumber: 2.2 Consensus size: 35
25328211 GTTCAATATT
25328221 ATTTAACATACATATTTAATTATTTATATTTAATA
1 ATTTAACATACATATTTAATTATTTATATTTAATA
25328256 ATTTAA-A-ACATATTTAATTATTTATATTTAATA
1 ATTTAACATACATATTTAATTATTTATATTTAATA
25328289 ATTTAA
1 ATTTAA
25328295 TCTATTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 32 0.82
34 1 0.03
35 6 0.15
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (35 bp):
ATTTAACATACATATTTAATTATTTATATTTAATA
Found at i:25328283 original size:47 final size:46
Alignment explanation
Indices: 25328218--25328333 Score: 121
Period size: 47 Copynumber: 2.5 Consensus size: 46
25328208 AATGTTCAAT
* ** *
25328218 ATTATTTAACATACATATTTAATTATTTATATTTAATAATTTAA-AA
1 ATTATTTAATATTTATATTTAATTATTTA-ATCTAATAATTTAATAA
* * *
25328264 CA-TATTTAATTATTTATATTTAATAATTTAATCTATTATTTTAATAA
1 -ATTATTTAA-TATTTATATTTAATTATTTAATCTAATAATTTAATAA
25328311 ATTATTTAATATTTA-ATTTAATT
1 ATTATTTAATATTTATATTTAATT
25328334 TTAATAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
45 7 0.12
46 25 0.43
47 26 0.45
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (46 bp):
ATTATTTAATATTTATATTTAATTATTTAATCTAATAATTTAATAA
Found at i:25328313 original size:22 final size:22
Alignment explanation
Indices: 25328267--25328310 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
25328257 TTTAAAACAT
25328267 ATTTAATTATTTATATTTAATA
1 ATTTAATTATTTATATTTAATA
25328289 ATTTAATCTA-TTAT-TTTAATA
1 ATTTAAT-TATTTATATTTAATA
25328310 A
1 A
25328311 ATTATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 11 0.52
23 2 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTAATTATTTATATTTAATA
Found at i:25328337 original size:30 final size:33
Alignment explanation
Indices: 25328280--25328340 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
25328270 TAATTATTTA
*
25328280 TATTTAATAATTTAATCTATTATTTTAATAAAT
1 TATTTAATAATTTAATCTATAATTTTAATAAAT
25328313 TATTTAAT-ATTTAAT-T-TAATTTTAATAA
1 TATTTAATAATTTAATCTATAATTTTAATAA
25328341 TAAATTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.41
31 1 0.04
32 7 0.26
33 8 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (33 bp):
TATTTAATAATTTAATCTATAATTTTAATAAAT
Found at i:25328342 original size:33 final size:33
Alignment explanation
Indices: 25328280--25328346 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
25328270 TAATTATTTA
*
25328280 TATTTAATAATTTAATCTATTATTTTAATAAAT
1 TATTTAATAATTTAATCTATTATTATAATAAAT
*
25328313 TATTTAAT-ATTTAATTTAATT-TTAATAATAAAT
1 TATTTAATAATTTAATCT-ATTATT-ATAATAAAT
25328346 T
1 T
25328347 TTACAACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.33
33 20 0.67
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (33 bp):
TATTTAATAATTTAATCTATTATTATAATAAAT
Found at i:25335307 original size:15 final size:15
Alignment explanation
Indices: 25335287--25335334 Score: 69
Period size: 15 Copynumber: 3.0 Consensus size: 15
25335277 TTTTTTCTTA
25335287 CTATTATTATTTTAT
1 CTATTATTATTTTAT
25335302 CTATTATTATTATTAT
1 CTATTATTATT-TTAT
25335318 CTATTTATGTATTTTAT
1 CTA-TTAT-TATTTTAT
25335335 TACAAATTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.37
16 7 0.23
17 8 0.27
18 4 0.13
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (15 bp):
CTATTATTATTTTAT
Found at i:25335324 original size:24 final size:23
Alignment explanation
Indices: 25335288--25335336 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
25335278 TTTTTCTTAC
25335288 TATTATTATTTTATCTATTATTAT
1 TATTATTATTTTATCTATT-TTAT
*
25335312 TATTATCTA-TTTATGTATTTTAT
1 TATTAT-TATTTTATCTATTTTAT
25335335 TA
1 TA
25335337 CAAATTGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 15 0.65
25 2 0.09
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TATTATTATTTTATCTATTTTAT
Found at i:25335427 original size:4 final size:4
Alignment explanation
Indices: 25335404--25335440 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
25335394 TTTTCCTCTA
* *
25335404 TATT TAAT TATT TATG TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
25335441 CCTTGTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:25335517 original size:3 final size:3
Alignment explanation
Indices: 25335509--25335595 Score: 86
Period size: 3 Copynumber: 28.7 Consensus size: 3
25335499 TGTCACCCTC
*
25335509 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TAT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * * * **
25335554 AAT ATT ATG ATG ATT AATA ATT ATT GCT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT AT
25335596 CAAATTGTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 1 0.01
3 66 0.94
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:25342421 original size:89 final size:89
Alignment explanation
Indices: 25342328--25342780 Score: 424
Period size: 89 Copynumber: 4.9 Consensus size: 89
25342318 GTCACAAATT
* * * *
25342328 TTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTCTGAAGTTGCAG
* *
25342393 TAGAGCAGATCAAAGCTATAAGTC
66 TAGAACAGATTAAAGCTATAAGTC
* * * * * *
25342417 TTATCTCCCAAAATTTGTATTGGAGCAGATTGAATATAGCGAATCTTATTTCCCTGAAGTTGCAG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTCTGAAGTTGCAG
* *
25342482 TGGAACAGATTAAAGCTACAAGTTACAAATC
66 TAGAACAGATTAAAGCT---A--T--AAGTC
* * * * * *
25342513 TTATCTCCCTAAAGATGCAATGGAGTAGATTGAAGATAACAAATCTTATCTT-TCTGAAATTGCA
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TTCTCTGAAGTTGCA
** *
25342577 GTAGAGTAGATTAAAACTATAAGTC
65 GTAGAACAGATTAAAGCTATAAGTC
* * *
25342602 TTATCTCCCTGAAA-TTGCAGTAGAGCAGATTGAATATAGCGAATCTTATTTCTTTGAAGTTGCA
1 TTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTCTGAAGTTGCA
* * *
25342666 GTGGAACAAATTAAAGCTACAAGTTAC
65 GTAGAACAGATTAAAGCTATAAG-T-C
* * * *
25342693 AAATTTTATCTCCTTAAAGATGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGA
1 -----TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTCTGAAGT
* * *
25342758 TACAGTGGAATAGATTAAAGCTA
61 TGCAGTAGAACAGATTAAAGCTA
25342781 CAAACCATAA
Statistics
Matches: 291, Mismatches: 55, Indels: 29
0.78 0.15 0.08
Matches are distributed among these distances:
88 2 0.01
89 138 0.47
90 4 0.01
91 2 0.01
92 1 0.00
93 1 0.00
94 1 0.00
95 3 0.01
96 137 0.47
97 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (89 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCTCTGAAGTTGCAG
TAGAACAGATTAAAGCTATAAGTC
Found at i:25342558 original size:96 final size:96
Alignment explanation
Indices: 25342316--25343331 Score: 516
Period size: 96 Copynumber: 10.9 Consensus size: 96
25342306 GAAGAGATTA
* * * * *
25342316 AAGTCACAAATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGCAAATCTTATCTCT
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
* * * *
25342381 CTGAAGTTGTAGTAGAGCAGATCAAAGCT--
66 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * * *
25342410 -A--T--AAGTCTTATCTCCCAAAATTTGTATTGGAGCAGATTGAATATAGCGAATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
25342470 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * *
25342501 AAGTTACAAATCTTATCTCCCTAAAGATGCAATGGAGTAGATTGAAGATAACAAATCTTATCTT-
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TTC
* * **
25342565 TCTGAAATTGCAGTAGAGTAGATTAAA---AC
65 TCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * *
25342594 ----TATAAGTCTTATCTCCCTGAAA-TTGCAGTAGAGCAGATTGAATATAGCGAATCTTATTTC
1 AAGTTACAAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTC
* *
25342654 TTTGAAGTTGCAGTGGAACAAATTAAAGCTAC
65 TCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * *
25342686 AAGTTACAAATTTTATCTCCTTAAAGATGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
* * *
25342751 CTGAAGATACAGTGGAATAGATTAAAGCTAC
66 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
*** * * * * * *
25342782 AAACCATAAATCCTATAC-CCCTGAAGTTACAGTGG-GACAGATTGAAGTCATCGTGGCAAATCT
1 AAGTTACAAATCTTAT-CTCCCTAAAGTTGCAGTGGAG-CAGATTGAAG--A---TAGCGAATCT
* * * * * *
25342845 TATCTCCCTAAAGTGGCAGTGGAGCAAATTAAAG---C
59 TATTTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * *** * *
25342880 ----TACAAATTTTATCTCCCTGAAGTCATAGTGGAGCAGGTTGAAGAT-GTGAATCTTATTT-T
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
* * * * *
25342939 CTTGAAGTTGTAGTGGAATAGTTTAAAGTTAA
66 C-TGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * *
25342971 AAATCACAAATCCTATAC-CCCTTAAGTTGCAGTAGGATG--GATTGAAGTCATTATGGCGAATC
1 AAGTTACAAATCTTAT-CTCCCTAAAGTTGCAGT-GGA-GCAGATTGAAG--A-TA--GCGAATC
* * * * *
25343033 TCATCTCT-TCGAAGTTGCAGTAGAGCAGATT---G-GA-
58 TTATTTCTCT-GAAGTTGCAGTGGAACAGATTAAAGCTAC
* ** * * * * * *
25343067 AA---ACTAATCTTATCTTTCTGAAGTTGCAGTTGAGCATATTGAAGTTA-CGAATCTTATCTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
* *
25343128 CTGAAGTAGCAGTGGAAAAGATTAAAG-T-C
66 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * *
25343157 AAATT-----TC--ATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTA-CAAATCTTATTTC-
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
* * * * *
25343213 CTTAAAGTTGAAATGGAACAGATTGAAGCTCC
66 C-TGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * * * * *
25343245 AAGTTGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCGGCTTGAAGCTA-CTAATTTTATCTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
* * *
25343309 CCGAAATTGCAGTAGAACAGATT
66 CTGAAGTTGCAGTGGAACAGATT
25343332 GAAGTGACAA
Statistics
Matches: 694, Mismatches: 160, Indels: 135
0.70 0.16 0.14
Matches are distributed among these distances:
85 1 0.00
86 61 0.09
87 31 0.04
88 39 0.06
89 138 0.20
90 8 0.01
91 1 0.00
92 7 0.01
93 34 0.05
94 33 0.05
95 88 0.13
96 181 0.26
97 6 0.01
98 4 0.01
100 1 0.00
101 60 0.09
102 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (96 bp):
AAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCT
CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
Found at i:25342640 original size:185 final size:185
Alignment explanation
Indices: 25342316--25342755 Score: 648
Period size: 185 Copynumber: 2.4 Consensus size: 185
25342306 GAAGAGATTA
* * *
25342316 AAGTCACAAATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGCAAATCTTATCTCT
1 AAGTTACAAATTTTATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
* * * * * *
25342381 CTGAAGTTGTAGTAGAGCAGATCAAAGCTATAAGTCTTATCTCCCAAAATTTGTATTGGAGCAGA
66 CTGAAATTGCAGTAGAGCAGATCAAAACTATAAGTCTTATCTCCCAAAATTTGCAGTAGAGCAGA
*
25342446 TTGAATATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
131 TTGAATATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
* * * * *
25342501 AAGTTACAAATCTTATCTCCCTAAAGATGCAATGGAGTAGATTGAAGATAACAAATCTTATCTTT
1 AAGTTACAAATTTTATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
* * *
25342566 CTGAAATTGCAGTAGAGTAGATTAAAACTATAAGTCTTATCTCCCTGAAA-TTGCAGTAGAGCAG
66 CTGAAATTGCAGTAGAGCAGATCAAAACTATAAGTCTTATCTCCC-AAAATTTGCAGTAGAGCAG
**
25342630 ATTGAATATAGCGAATCTTATTTCTTTGAAGTTGCAGTGGAACAAATTAAAGCTAC
130 ATTGAATATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
* * * *
25342686 AAGTTACAAATTTTATCTCCTTAAAGATGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 AAGTTACAAATTTTATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
25342751 CTGAA
66 CTGAA
25342756 GATACAGTGG
Statistics
Matches: 225, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
185 222 0.99
186 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (185 bp):
AAGTTACAAATTTTATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
CTGAAATTGCAGTAGAGCAGATCAAAACTATAAGTCTTATCTCCCAAAATTTGCAGTAGAGCAGA
TTGAATATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
Found at i:25342990 original size:189 final size:189
Alignment explanation
Indices: 25342690--25343039 Score: 452
Period size: 189 Copynumber: 1.8 Consensus size: 189
25342680 AGCTACAAGT
*
25342690 TACAAATTTTATCTCCTTAAAGATGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGA
1 TACAAATTTTATCTCCCTAAAGAT-CAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGA
* * *
25342755 AGATACAGTGGAATAGATTAAAGCTACAAACCATAAATCCTATACCCCTGAAGTTACAGTGGGAC
65 AGATACAGTGGAATAGATTAAAGCTAAAAACCACAAATCCTATACCCCTGAAGTTACAGTAGGAC
* *
25342820 AGATTGAAGTCATCGTGGCAAATCTTATCTCCCTAAAGTGGCAGTGGAGCAAATTAAAGC
130 AGATTGAAGTCATCATGGCAAATCTCATCTCCCTAAAGTGGCAGTGGAGCAAATTAAAGC
* * * * *
25342880 TACAAATTTTATCTCCCTGAAG-TCATAGTGGAGCAGGTTGAAGAT-GTGAATCTTATTTTCTTG
1 TACAAATTTTATCTCCCTAAAGATC--AGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTG
* ** * * * * *
25342943 AAGTTGTAGTGGAATAGTTTAAAGTTAAAAATCACAAATCCTATACCCCTTAAGTTGCAGTAGGA
64 AAGATACAGTGGAATAGATTAAAGCTAAAAACCACAAATCCTATACCCCTGAAGTTACAGTAGGA
** * *
25343008 TGGATTGAAGTCATTATGGCGAATCTCATCTC
129 CAGATTGAAGTCATCATGGCAAATCTCATCTC
25343040 TTCGAAGTTG
Statistics
Matches: 135, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
188 1 0.01
189 96 0.71
190 38 0.28
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (189 bp):
TACAAATTTTATCTCCCTAAAGATCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAA
GATACAGTGGAATAGATTAAAGCTAAAAACCACAAATCCTATACCCCTGAAGTTACAGTAGGACA
GATTGAAGTCATCATGGCAAATCTCATCTCCCTAAAGTGGCAGTGGAGCAAATTAAAGC
Found at i:25343194 original size:42 final size:44
Alignment explanation
Indices: 25343072--25343367 Score: 152
Period size: 44 Copynumber: 6.6 Consensus size: 44
25343062 TTGGAAAACT
** * * * *
25343072 AATCTTATCTTTCTGAAGTTGCAGTTGAGCATATTGAAGTTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGTTACA
* *
25343116 AATCTTATCTCCCTGAAGTAGCAGTGGA-AAAGATTAAAG-T-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGTTACA
*
25343158 AAT-TTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTACA
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGTTACA
* * * * * * * *
25343202 AATCTTATTTCCTTAAAGTTGAAATGGAACAGATTGAAGCTCCAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT--A-----AAGTTACA
* * *** * * *
25343253 AATCTTATCTCCCTAAAGTTGCAGTAGAGCGGCTTGAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGTTACA
* * * * * * * *
25343297 AATTTTATCTCCCCGAAATTGCAGTAGAACAGATTGAAGTGACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGTTACA
* *
25343341 ATTCCTATAC-CCCTGAAGTTGCAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
25343368 GTTAGAACTA
Statistics
Matches: 191, Mismatches: 47, Indels: 28
0.72 0.18 0.11
Matches are distributed among these distances:
41 2 0.01
42 32 0.17
43 5 0.03
44 115 0.60
45 3 0.02
46 1 0.01
51 33 0.17
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGTTACA
Found at i:25344918 original size:3 final size:3
Alignment explanation
Indices: 25344912--25344969 Score: 66
Period size: 3 Copynumber: 18.7 Consensus size: 3
25344902 CTACTACTAC
25344912 TAT TAT TAT TAT TAT TAT T-T TAT CTAT TAT TAT TAT TAT CTATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TA-T TAT
25344959 GTAT T-T TAT TA
1 -TAT TAT TAT TA
25344970 CAAATTGCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.08
3 34 0.69
4 10 0.20
5 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:25344938 original size:24 final size:24
Alignment explanation
Indices: 25344911--25344969 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
25344901 ACTACTACTA
25344911 CTATTATTATTATTAT-TATTTTAT
1 CTATTATTATTATTATCTA-TTTAT
25344935 CTATTATTATTATTATCTATTTAT
1 CTATTATTATTATTATCTATTTAT
*
25344959 GTATT-TTATTA
1 CTATTATTATTA
25344970 CAAATTGCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 6 0.18
24 25 0.76
25 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (24 bp):
CTATTATTATTATTATCTATTTAT
Found at i:25345163 original size:3 final size:3
Alignment explanation
Indices: 25345155--25345201 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
25345145 CTTGTTCTTG
*
25345155 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25345202 GTTTATGTTA
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:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25345785 original size:16 final size:16
Alignment explanation
Indices: 25345764--25345794 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25345754 GTTTTACTAA
25345764 AAAAATACATTAATAC
1 AAAAATACATTAATAC
25345780 AAAAATACATTAATA
1 AAAAATACATTAATA
25345795 TAAGGAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATACATTAATAC
Found at i:25350914 original size:20 final size:20
Alignment explanation
Indices: 25350889--25350930 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
25350879 TCTGCAAGTT
25350889 TATGGTCTTGCTTATTTTTC
1 TATGGTCTTGCTTATTTTTC
25350909 TATGGTCTTGCTTATTTTTC
1 TATGGTCTTGCTTATTTTTC
25350929 TA
1 TA
25350931 CTTTTAGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (20 bp):
TATGGTCTTGCTTATTTTTC
Found at i:25356472 original size:18 final size:18
Alignment explanation
Indices: 25356449--25356490 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25356439 GCTTTGGTGC
*
25356449 AAGAGGAAGAGGCAGAGG
1 AAGAGGAACAGGCAGAGG
*
25356467 AAGAGGAACAGGTAGAGG
1 AAGAGGAACAGGCAGAGG
*
25356485 TAGAGG
1 AAGAGG
25356491 TGGATATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.48, T:0.05
Consensus pattern (18 bp):
AAGAGGAACAGGCAGAGG
Found at i:25359757 original size:23 final size:22
Alignment explanation
Indices: 25359714--25359757 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
25359704 TTCTTTCTAA
*
25359714 TTTTAATATTTTTTACCTTAAT
1 TTTTAATATTTTTTACATTAAT
25359736 TTTTAATAATTTATTTA-ATTAA
1 TTTTAAT-ATTT-TTTACATTAA
25359758 ACCTACTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAATATTTTTTACATTAAT
Found at i:25360242 original size:73 final size:73
Alignment explanation
Indices: 25360152--25360295 Score: 209
Period size: 73 Copynumber: 2.0 Consensus size: 73
25360142 AAAGCCCCGC
* *
25360152 AAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTTCG-GAGATTTAGCGGCATTTTTAAGAAA
1 AAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTTCGAG-GATTTAACGACATTTTTAAGAAA
*
25360216 GTGCCACAA
65 GCGCCACAA
* * * *
25360225 AAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGAGGATTTAACGACGTTTTTAAGAGAG
1 AAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTTCGAGGATTTAACGACATTTTTAAGAAAG
25360290 CGCCAC
66 CGCCAC
25360296 TAATGCTCAG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 62 0.98
74 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (73 bp):
AAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTTCGAGGATTTAACGACATTTTTAAGAAAG
CGCCACAA
Found at i:25360341 original size:114 final size:113
Alignment explanation
Indices: 25360195--25360522 Score: 421
Period size: 114 Copynumber: 2.9 Consensus size: 113
25360185 CTTTCGGAGA
* * * * *
25360195 TTTAGCGGCATTTTTAAGAAAGTGCCACAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
* * *
25360260 TTCGAGGATTTAACGACGTTTTTAAGAGAGCGCCACTAATGCTCAGGGC-
66 TT-G-GGATTTAGCGACGTTTTTAAAAAAGCGCCACTAATGCTCAGGGCT
* *
25360309 TTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
* * **
25360374 TTGGGGATTTAGCGGCGTTTTTAATAAAGCGCTGCTAATGCTCAGGGCTT
66 TT-GGGATTTAGCGACGTTTTTAAAAAAGCGCCACTAATGCTCAGGGC-T
* *
25360424 TTTAGTGGCGTTTTTGAGAAAGCGCCGC--AAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
25360487 TTAGGAGATTTAGC-AGCGTTTTTAAAAAAGCGCCAC
66 TT-GG-GATTTAGCGA-CGTTTTTAAAAAAGCGCCAC
25360523 AAAAAAACTA
Statistics
Matches: 188, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
113 75 0.40
114 87 0.46
115 26 0.14
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAAGCCGTTTTCTGAGCT
TTGGGATTTAGCGACGTTTTTAAAAAAGCGCCACTAATGCTCAGGGCT
Found at i:25360569 original size:72 final size:71
Alignment explanation
Indices: 25360431--25360594 Score: 202
Period size: 72 Copynumber: 2.3 Consensus size: 71
25360421 CTTTTTAGTG
* * * *
25360431 GCGTTTTTGAGAAAGCGCCGCAAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCTTTAGGAGAT
1 GCGTTTTTAAGAAAGCGCCACAAAAAACTAAGCCCAACGAAGCCGTTTTCGGAGATTTAGGAGAT
25360496 TTAGCA
66 TTAGCA
* * * * * *
25360502 GCGTTTTTAAAAAAGCGCCACAAAAAAACTAAGCCCAACGATGCTGTTTTCTGAGATTTCGGGGA
1 GCGTTTTTAAGAAAGCGCCAC-AAAAAACTAAGCCCAACGAAGCCGTTTTCGGAGATTTAGGAGA
* *
25360567 TTTGGCG
65 TTTAGCA
*
25360574 GCGTTTTTAAGAGAGCGCCAC
1 GCGTTTTTAAGAAAGCGCCAC
25360595 TAATGCTCAG
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
71 18 0.23
72 60 0.77
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (71 bp):
GCGTTTTTAAGAAAGCGCCACAAAAAACTAAGCCCAACGAAGCCGTTTTCGGAGATTTAGGAGAT
TTAGCA
Found at i:25360642 original size:113 final size:113
Alignment explanation
Indices: 25360495--25360705 Score: 307
Period size: 113 Copynumber: 1.9 Consensus size: 113
25360485 CTTTAGGAGA
* * *
25360495 TTTAGCAGCGTTTTTAAAAAAGCGCCACAAAAAAA-CTAAGCCCAACGATGCTGTTTTCTGAGAT
1 TTTAGCAGCATTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGAT
* *
25360559 TTCGGGGATTTGGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCAGGGC
66 TT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGC
* * * *
25360608 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCAGCATTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGAT
* *
25360673 TTGGGGATTTAGTGGCGTTTTTAATAAAGCGCC
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
25360706 GCAAAAAAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 58 0.67
114 28 0.33
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (113 bp):
TTTAGCAGCATTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGAT
TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGC
Found at i:25360679 original size:299 final size:300
Alignment explanation
Indices: 25360140--25360704 Score: 970
Period size: 299 Copynumber: 1.9 Consensus size: 300
25360130 GATGTTTTCC
* * *
25360140 AGAAAGCCCCGCAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTTCGGAGATTTAGCGGCA
1 AGAAAGCCCCGCAAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCTTTAGGAGATTTAGCAGCA
* * *
25360205 TTTTTAAGAAAGTGCCACAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGAGGATT
66 TTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGATTTCGAGGATT
* *
25360270 TAACGACGTTTTTAAGAGAGCGCCACTAATGCTCAGGGCTTTAGCAGCGTTTTTGAGAAAGCGCC
131 TAACGACGTTTTTAAGAGAGCGCCACTAATGCTCAGGGCTTTAGCAGCATTTTTAAGAAAGCGCC
25360335 GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAATA
196 GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAATA
25360400 AAGCGCTGCTAATGCTCAGGGCTTTTTAGTGGCGTTTTTG
261 AAGCGCTGCTAATGCTCAGGGCTTTTTAGTGGCGTTTTTG
* *
25360440 AGAAAGCGCCGCAAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCTTTAGGAGATTTAGCAGCG
1 AGAAAGCCCCGCAAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCTTTAGGAGATTTAGCAGCA
* *
25360505 TTTTTAAAAAAGCGCCACAAAAAAA-CTAAGCCCAACGATGCTGTTTTCTGAGATTTCGGGGATT
66 TTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGATTTCGAGGATT
** * *
25360569 TGGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTAAGAAAGCGCC
131 TAACGACGTTTTTAAGAGAGCGCCACTAATGCTCAGGGCTTTAGCAGCATTTTTAAGAAAGCGCC
*
25360634 GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGGGATTTAGTGGCGTTTTTAATA
196 GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAATA
25360699 AAGCGC
261 AAGCGC
25360705 CGCAAAAAAA
Statistics
Matches: 248, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
299 165 0.67
300 83 0.33
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (300 bp):
AGAAAGCCCCGCAAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCTTTAGGAGATTTAGCAGCA
TTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGATTTCGAGGATT
TAACGACGTTTTTAAGAGAGCGCCACTAATGCTCAGGGCTTTAGCAGCATTTTTAAGAAAGCGCC
GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGGGATTTAGCGGCGTTTTTAATA
AAGCGCTGCTAATGCTCAGGGCTTTTTAGTGGCGTTTTTG
Found at i:25360713 original size:185 final size:185
Alignment explanation
Indices: 25360309--25360890 Score: 846
Period size: 185 Copynumber: 3.1 Consensus size: 185
25360299 TGCTCAGGGC
*
25360309 TTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
25360374 TTGGGGATTTAGCGGCGTTTTTAATAAAGCGCTGCTAATGCTCAGGGCTTTTTAGTGGCGTTTTT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC-TTTTAGCGGCGTTTTT
* *
25360439 GAGAAAGCGCCGC-AAAAACCTAAGCCCAACGAAGCCGTTTTCGGAGCTTTAGGAGA
130 GAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT-GGAGA
* * * * *
25360495 TTTAGCAGCGTTTTTAAAAAAGCGCCACAAAAAAA-CTAAGCCCAACGATGCTGTTTTCTGAGAT
1 TTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
25360559 TTCGGGGATTTGGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCAGGGC-TTTAGCGGCATTTTT
66 TT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTTT
* *
25360623 AAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGGGA
130 GAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGAGA
** * **
25360680 TTTAGTGGCGTTTTTAATAAAGCGCCGCAAAAAAACCTAAGCCTGACGACGCCGTTTTCTGAGCT
1 TTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
25360745 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTTAGCGACGTTTTTG
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTTTG
* * * *
25360810 TGAAAGCGCCGCAAAAAACTTAAGCCCAACGACGCTGTTTTCTGAGCTTTGGTGA
131 AGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGAGA
*
25360865 TTTAGCCGCGTTTTTAAGAAAGCGCC
1 TTTAGCAGCGTTTTTAAGAAAGCGCC
25360891 TCTAATGCTC
Statistics
Matches: 351, Mismatches: 40, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
184 25 0.07
185 168 0.48
186 158 0.45
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (185 bp):
TTTAGCAGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTTTG
AGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTGGAGA
Found at i:25360729 original size:72 final size:72
Alignment explanation
Indices: 25360608--25360779 Score: 299
Period size: 72 Copynumber: 2.4 Consensus size: 72
25360598 TGCTCAGGGC
*
25360608 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
25360673 TTGGGGA
66 TTGGGGA
* * **
25360680 TTTAGTGGCGTTTTTAATAAAGCGCCGCAAAAAAACCTAAGCCTGACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
25360745 TTGGGGA
66 TTGGGGA
25360752 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
25360780 TAATGCTTAG
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTGGGGA
Found at i:25360939 original size:114 final size:114
Alignment explanation
Indices: 25360680--25361018 Score: 509
Period size: 113 Copynumber: 3.0 Consensus size: 114
25360670 GCTTTGGGGA
* * * **
25360680 TTTAGTGGCGTTTTTAATAAAGCGCCGCAAAAAAACCTAAGCCTGACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
25360745 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCT
* * * *
25360794 TTTAGCGACGTTTTTGTGAAAGCGCCGC-AAAAAACTTAAGCCCAACGACGCTGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
25360858 TTGGTGATTTAGCCGCGTTTTTAAGAAAGCGCCTCTAATGCTCAAGGCTT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGC-T
* *
25360908 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-
25360973 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAA
65 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAA
25361019 ATAGTTGTAA
Statistics
Matches: 199, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
113 75 0.38
114 49 0.25
115 32 0.16
116 43 0.22
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCT
Found at i:25361249 original size:22 final size:21
Alignment explanation
Indices: 25361224--25361290 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
25361214 AGTGTGTAAA
25361224 GGTTAGGAGCTTAGGGTTTAGG
1 GGTTAGG-GCTTAGGGTTTAGG
* *
25361246 GGTTATGGGCTTAGGGTCTATG
1 GGTTA-GGGCTTAGGGTTTAGG
*
25361268 GGTTAGTGGCTTATGGTTTAGG
1 GGTTAG-GGCTTAGGGTTTAGG
25361290 G
1 G
25361291 TTTAATCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.92
23 2 0.05
ACGTcount: A:0.15, C:0.06, G:0.43, T:0.36
Consensus pattern (21 bp):
GGTTAGGGCTTAGGGTTTAGG
Found at i:25361358 original size:22 final size:22
Alignment explanation
Indices: 25361333--25361422 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 22
25361323 GGGTTTGTGC
25361333 TTTATAGGTTTAAGGTTTAGGG
1 TTTATAGGTTTAAGGTTTAGGG
*
25361355 TTTA-GGGTTTAAGGGTTTA-GG
1 TTTATAGGTTTAA-GGTTTAGGG
* * *
25361376 -TTATCGGCTTAGGGTTTAAGGG
1 TTTATAGGTTTAAGGTTT-AGGG
* *
25361398 -TTATTGGTTTACA-GTTTAGTG
1 TTTATAGGTTTA-AGGTTTAGGG
25361419 TTTA
1 TTTA
25361423 CGATTTAGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
20 8 0.15
21 18 0.33
22 28 0.52
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (22 bp):
TTTATAGGTTTAAGGTTTAGGG
Found at i:25361540 original size:7 final size:7
Alignment explanation
Indices: 25361339--25361540 Score: 74
Period size: 7 Copynumber: 29.0 Consensus size: 7
25361329 GTGCTTTATA
*
25361339 GGTTTAA
1 GGTTTAG
25361346 GGTTTAG
1 GGTTTAG
25361353 GGTTTAG
1 GGTTTAG
25361360 GGTTTAAG
1 GGTTT-AG
25361368 GGTTTA-
1 GGTTTAG
*
25361374 GG-TTATC
1 GGTTTA-G
*
25361381 GGCTTAG
1 GGTTTAG
25361388 GGTTTAAG
1 GGTTT-AG
*
25361396 GG-TTATT
1 GGTTTA-G
*
25361403 GGTTTAC
1 GGTTTAG
*
25361410 AGTTTAG
1 GGTTTAG
* *
25361417 TGTTTAC
1 GGTTTAG
*
25361424 GATTTAG
1 GGTTTAG
*
25361431 GGTGTA-
1 GGTTTAG
*
25361437 GGTTTAT
1 GGTTTAG
*
25361444 GGTTTAA
1 GGTTTAG
* *
25361451 AGTAT-G
1 GGTTTAG
* *
25361457 CAGTTTAT
1 -GGTTTAG
*
25361465 GATTTAG
1 GGTTTAG
* *
25361472 TGTTTAT
1 GGTTTAG
25361479 GGTTTAG
1 GGTTTAG
*
25361486 GGTGTAG
1 GGTTTAG
*
25361493 GGTGT-G
1 GGTTTAG
*
25361499 GGTTTAT
1 GGTTTAG
25361506 GGTTTAG
1 GGTTTAG
* *
25361513 TGTTTAT
1 GGTTTAG
* *
25361520 TGTTTAT
1 GGTTTAG
*
25361527 TGTTTAG
1 GGTTTAG
25361534 GGTTTAG
1 GGTTTAG
25361541 CTAGTAGCTT
Statistics
Matches: 147, Mismatches: 37, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
5 3 0.02
6 13 0.09
7 114 0.78
8 17 0.12
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:25361877 original size:103 final size:103
Alignment explanation
Indices: 25361528--25361843 Score: 614
Period size: 103 Copynumber: 3.1 Consensus size: 103
25361518 ATTGTTTATT
*
25361528 GTTTAGGGTTTAGCTAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
1 GTTTAGGGTTTAGATAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
25361593 AGGGCATATGGTTTAGGGTTTAAATTTTATATTTTAGG
66 AGGGCATATGGTTTAGGGTTTAAATTTTATATTTTAGG
25361631 GTTTAGGGTTTAGATAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
1 GTTTAGGGTTTAGATAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
*
25361696 AGGGTATATGGTTTAGGGTTTAAATTTTATATTTTAGG
66 AGGGCATATGGTTTAGGGTTTAAATTTTATATTTTAGG
25361734 GTTTAGGGTTTAGATAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
1 GTTTAGGGTTTAGATAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
25361799 AGGGCATATGGTTTAGGGTTTAAATTTTATATTTTAGG
66 AGGGCATATGGTTTAGGGTTTAAATTTTATATTTTAGG
25361837 GTTTAGG
1 GTTTAGG
25361844 ATTATGGTAA
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.28, C:0.03, G:0.30, T:0.39
Consensus pattern (103 bp):
GTTTAGGGTTTAGATAGTAGCTTAGAGTTTAAGGATTAATATGGGCATAGGGTATATGGGTTAAG
AGGGCATATGGTTTAGGGTTTAAATTTTATATTTTAGG
Found at i:25362141 original size:114 final size:114
Alignment explanation
Indices: 25362003--25362288 Score: 306
Period size: 115 Copynumber: 2.5 Consensus size: 114
25361993 TTTAATTTCC
* * * **
25362003 GTTTTTAGTGGCGTTTCTTCATAAACGCCACAATTATGTTTTAAGTCTTTGCTAAACACTGTCGT
1 GTTTTT-GTGGCGTTTTTTGATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACAATCGT
** **
25362068 TTTAAATTGCG-TTGTAGTGGCGTTTTTTC-TTATGCGCCGCAAAATTTAG
65 TTTAAATTGCGTTTGTAGTGGCG-TTTTTCGTTAAACGCCGCAAAAGGTAG
* ** *
25362117 GTTTTTGTGGCGTTTTTATGATAAACGCCGCAGTTATGTTTTAAGTCTGCGCTAAACGCAATCGT
1 GTTTTTGTGGCGTTTTT-TGATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACAATCGT
*** * * *
25362182 TTTTGTTTGCGTTTTTAGTGGCGTTTTTCGTTAAACGCCGCAATAGGTAT
65 TTTAAATTGCGTTTGTAGTGGCGTTTTTCGTTAAACGCCGCAAAAGGTAG
* * * * *
25362232 GTTTTAGTGGCATTTTTTTGGTAAACGCCGCAATTATGTTTTAAATGTTTGCTAAAC
1 GTTTTTGTGGC-GTTTTTTGATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAAC
25362289 GGTGTCGTAT
Statistics
Matches: 141, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
113 10 0.07
114 59 0.42
115 67 0.48
116 5 0.04
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (114 bp):
GTTTTTGTGGCGTTTTTTGATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACAATCGTT
TTAAATTGCGTTTGTAGTGGCGTTTTTCGTTAAACGCCGCAAAAGGTAG
Found at i:25362487 original size:25 final size:25
Alignment explanation
Indices: 25362420--25362488 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
25362410 CCCCACTCAG
25362420 ATTTCCCCAATTTCA-TTT-CCCTA
1 ATTTCCCCAATTTCATTTTCCCCTA
*
25362443 ATTTCCCAAATATT--TCTTTCCCCTA
1 ATTTCCCCAAT-TTCAT-TTTCCCCTA
25362468 ATTTCCCCAATTTCATTTTCC
1 ATTTCCCCAATTTCATTTTCC
25362489 GAAATCCCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
25 20 0.53
26 1 0.03
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTCCCCAATTTCATTTTCCCCTA
Found at i:25363803 original size:9 final size:9
Alignment explanation
Indices: 25363789--25364089 Score: 247
Period size: 9 Copynumber: 34.3 Consensus size: 9
25363779 TAATTATGTA
25363789 TACATAACT
1 TACATAACT
25363798 TACATAACT
1 TACATAACT
* *
25363807 TAAATATCT
1 TACATAACT
*
25363816 TACACAACT
1 TACATAACT
*
25363825 TACATAACC
1 TACATAACT
25363834 TACATAA--
1 TACATAACT
25363841 TACATTTAACT
1 TACA--TAACT
25363852 TACATAACT
1 TACATAACT
25363861 TACATAACT
1 TACATAACT
25363870 TACATAA--
1 TACATAACT
*
25363877 TACAAAACT
1 TACATAACT
25363886 TACATAACT
1 TACATAACT
* *
25363895 TAAATATCT
1 TACATAACT
*
25363904 TACACAACT
1 TACATAACT
*
25363913 TACATAACC
1 TACATAACT
25363922 TACATAA--
1 TACATAACT
*
25363929 TAAATTTAACT
1 TACA--TAACT
25363940 TACATAACT
1 TACATAACT
*
25363949 TACATAATACA
1 TACAT-A-ACT
25363960 TA-ATAACT
1 TACATAACT
25363968 TAC--AACT
1 TACATAACT
*
25363975 TACATAACA
1 TACATAACT
*
25363984 TACATTACT
1 TACATAACT
**
25363993 TTGATAACT
1 TACATAACT
25364002 TACATAACT
1 TACATAACT
25364011 TACATAA--
1 TACATAACT
*
25364018 TACACAACT
1 TACATAACT
*
25364027 TACATAGCT
1 TACATAACT
*
25364036 TACTTAA--
1 TACATAACT
25364043 TACATAACT
1 TACATAACT
25364052 TACATAA--
1 TACATAACT
25364059 TACAT-ACAT
1 TACATAAC-T
25364068 GTACATAACT
1 -TACATAACT
*
25364078 TACATAATT
1 TACATAACT
25364087 TAC
1 TAC
25364090 TTAATACATA
Statistics
Matches: 233, Mismatches: 35, Indels: 48
0.74 0.11 0.15
Matches are distributed among these distances:
6 1 0.00
7 37 0.16
8 4 0.02
9 169 0.73
10 9 0.04
11 13 0.06
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:25363937 original size:88 final size:86
Alignment explanation
Indices: 25363788--25364049 Score: 332
Period size: 88 Copynumber: 3.0 Consensus size: 86
25363778 TTAATTATGT
* *
25363788 ATACATAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATACATTTAACTT
1 ATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATAAATTTAACTT
25363853 ACATAACTTACATAACTTACATA
66 ACATAACTTACATAA--TACATA
25363876 ATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATAAATTTAACTT
1 ATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATAAATTTAACTT
25363941 ACATAACTTACATAATACATA
66 ACATAACTTACATAATACATA
* * * ** * * * *
25363962 ATAACTTACAACTTACATAACATACAT-TACTTTGATAACTTACATAACTTACATAATACA--CA
1 AT-AC--AAAACTTACATAACTTAAATAT-CTTACACAACTTACATAACCTACATAATAAATTTA
* *
25364024 ACTTACATAGCTTACTTAATACATA
62 ACTTACATAACTTACATAATACATA
25364049 A
1 A
25364050 CTTACATAAT
Statistics
Matches: 157, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
86 8 0.05
87 27 0.17
88 79 0.50
89 43 0.27
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (86 bp):
ATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATAAATTTAACTT
ACATAACTTACATAATACATA
Found at i:25369622 original size:21 final size:21
Alignment explanation
Indices: 25369596--25369664 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
25369586 CTAAAACTTA
*
25369596 AAGCAGAGGC-GACAACGAGGG
1 AAGCAGAGGCTG-CAACGAGAG
*
25369617 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAACGAGAG
* *
25369638 AAGCAGAGGTTGCAGCGCA-AG
1 AAGCAGAGGCTGCAACG-AGAG
25369659 AAGCAG
1 AAGCAG
25369665 TAAGAGAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 41 0.95
22 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACGAGAG
Found at i:25370170 original size:42 final size:42
Alignment explanation
Indices: 25370048--25370231 Score: 205
Period size: 42 Copynumber: 4.4 Consensus size: 42
25370038 AATTCCAAAA
* * *
25370048 TTAGTGGCGTTTTTTTATAAAAGCGCCGCTAAAGAACATTA-CTT
1 TTAGCGGCGTTTTTTT-T-AAAGCGCAGCTAAAGAACATGATC-T
* ** *
25370092 TTAGCGACGTTTGTGATGAAAGCGCCA-CTAAAGAACATGATCT
1 TTAGCGGCGTTT-TTTTTAAAGCG-CAGCTAAAGAACATGATCT
*
25370135 TTAGCGGCGTTTTTTTTTAAGCGCAGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTTTAAAGCGCAGCTAAAGAACATGATCT
* *
25370177 TTAGCGGCG-TTTTTTT-AAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTTTAAAGCGCAGCTAAAGAACATGATCT
25370217 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
25370232 CTGTAAACGC
Statistics
Matches: 121, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
40 31 0.26
41 14 0.12
42 32 0.26
43 30 0.25
44 12 0.10
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTTTAAAGCGCAGCTAAAGAACATGATCT
Found at i:25370204 original size:40 final size:40
Alignment explanation
Indices: 25370068--25370231 Score: 204
Period size: 40 Copynumber: 4.0 Consensus size: 40
25370058 TTTTTTATAA
* * **
25370068 AAGCGCCGCTAAAGAACATTA-CTTTTAGCGACGTTTGTGATGA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTT-T--TTT
*
25370111 AAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTT
*
25370153 AAGCGCAGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
*
25370193 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
25370232 CTGTAAACGC
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
40 44 0.40
42 32 0.29
43 28 0.26
44 2 0.02
45 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
Found at i:25371253 original size:9 final size:9
Alignment explanation
Indices: 25371219--25371258 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
25371209 ATTAATTAAG
25371219 ATTAATGTTA
1 ATTAA-GTTA
25371229 ATTAA-TT-
1 ATTAAGTTA
25371236 ATT-AGTTA
1 ATTAAGTTA
25371244 ATTAAGTTA
1 ATTAAGTTA
25371253 ATTAAG
1 ATTAAG
25371259 AGTTAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
6 1 0.04
7 5 0.19
8 5 0.19
9 11 0.41
10 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (9 bp):
ATTAAGTTA
Found at i:25371262 original size:20 final size:20
Alignment explanation
Indices: 25371209--25371264 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
25371199 CCCCAAATTG
25371209 ATTAATTAAGA-TTAATGTTA
1 ATTAATTAAGAGTTAA-GTTA
**
25371229 ATTAATTATTAGTTAA-TTA
1 ATTAATTAAGAGTTAAGTTA
25371248 AGTTAATTAAGAGTTAA
1 A-TTAATTAAGAGTTAA
25371265 ACTTAGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTAATTAAGAGTTAAGTTA
Found at i:25372213 original size:16 final size:16
Alignment explanation
Indices: 25372192--25372245 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
25372182 TCAATTTCCA
25372192 AAAACTAACTACTATT
1 AAAACTAACTACTATT
25372208 AAAACTCATA-TCACTA--
1 AAAACT-A-ACT-ACTATT
25372224 AAAACTAACTACTATT
1 AAAACTAACTACTATT
25372240 AAAACT
1 AAAACT
25372246 CATATCACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 18 0.56
17 2 0.06
18 5 0.16
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAACTAACTACTATT
Found at i:25372232 original size:32 final size:32
Alignment explanation
Indices: 25372191--25372253 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
25372181 CTCAATTTCC
25372191 AAAAACTAACTACTATTAAAACTCATATCACT
1 AAAAACTAACTACTATTAAAACTCATATCACT
25372223 AAAAACTAACTACTATTAAAACTCATATCAC
1 AAAAACTAACTACTATTAAAACTCATATCAC
25372254 ACTAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (32 bp):
AAAAACTAACTACTATTAAAACTCATATCACT
Found at i:25373299 original size:29 final size:29
Alignment explanation
Indices: 25373256--25373400 Score: 141
Period size: 29 Copynumber: 5.0 Consensus size: 29
25373246 ACAACCCTCT
* *
25373256 AATATGAAAAGGGATGGTTTCGATCATCA
1 AATATGAAAAGGGATGGTTTCGACCATCG
* *
25373285 AATATGAACAA-GGATAGTGAT-GACCATCG
1 AATATGAA-AAGGGATGGT-TTCGACCATCG
*
25373314 AATATGAAAAGGGATGATTTCGACCATCG
1 AATATGAAAAGGGATGGTTTCGACCATCG
* * *
25373343 AATATGAAAAGGAATGGTTTTGACCATTG
1 AATATGAAAAGGGATGGTTTCGACCATCG
* * * *
25373372 ATTAAAGAAAAGGGATGGTTACAACCATC
1 AAT-ATGAAAAGGGATGGTTTCGACCATC
25373401 ATTTAGCACA
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.03
29 68 0.73
30 22 0.24
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
AATATGAAAAGGGATGGTTTCGACCATCG
Found at i:25373399 original size:59 final size:58
Alignment explanation
Indices: 25373256--25373401 Score: 159
Period size: 58 Copynumber: 2.5 Consensus size: 58
25373246 ACAACCCTCT
* *
25373256 AATATGAAAAGGGATGGTTTCGATCATCAAATATGAACAAGGATAGTGATGACCATCG
1 AATAAGAAAAGGGATGGTTTCGACCATCAAATATGAACAAGGATAGTGATGACCATCG
* * * * ** *
25373314 AATATGAAAAGGGATGATTTCGACCATCGAATATGAA-AAGGAATGGTTTTGACCATTG
1 AATAAGAAAAGGGATGGTTTCGACCATCAAATATGAACAAGG-ATAGTGATGACCATCG
* * *
25373372 ATTAAAGAAAAGGGATGGTTACAACCATCA
1 AAT-AAGAAAAGGGATGGTTTCGACCATCA
25373402 TTTAGCACAC
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
57 4 0.05
58 48 0.66
59 21 0.29
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (58 bp):
AATAAGAAAAGGGATGGTTTCGACCATCAAATATGAACAAGGATAGTGATGACCATCG
Found at i:25383692 original size:22 final size:22
Alignment explanation
Indices: 25383632--25383689 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
25383622 AATCTTCAAG
25383632 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
25383651 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
25383673 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
25383690 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:25384419 original size:26 final size:25
Alignment explanation
Indices: 25384374--25384431 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
25384364 ATATATTTTT
25384374 TATTTTTTTATAATTCACATACATTA
1 TATTTTTTTATAATTCACATACA-TA
*
25384400 TATTTTTCTTAT-ATGT-ACATATATA
1 TATTTTT-TTATAAT-TCACATACATA
25384425 TATTTTT
1 TATTTTT
25384432 ATATTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.31
26 15 0.52
27 5 0.17
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTTTTTTATAATTCACATACATA
Found at i:25384433 original size:22 final size:22
Alignment explanation
Indices: 25384393--25384435 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25384383 ATAATTCACA
*
25384393 TACATTATATTTTTCTTATATG
1 TACATTATATATTTCTTATATG
25384415 TACATATATATATTT-TTATAT
1 TACAT-TATATATTTCTTATAT
25384436 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
TACATTATATATTTCTTATATG
Found at i:25384619 original size:3 final size:3
Alignment explanation
Indices: 25384613--25384675 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
25384603 TTATCTTTTC
*
25384613 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
25384661 ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT
25384676 GTTCTTGATC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25385177 original size:112 final size:112
Alignment explanation
Indices: 25384980--25385203 Score: 412
Period size: 112 Copynumber: 2.0 Consensus size: 112
25384970 CTAAAAATAA
25384980 TAAAGCTAATATTCAATGTTTAGAATTTTGAGAAATTGTGCCCTAACGTATTGGGCTGCGATTTC
1 TAAAGCTAATATTCAATGTTTAGAATTTTGAGAAATTGTGCCCTAACGTATTGGGCTGCGATTTC
* *
25385045 TTCATCTGACTTAAACAATTGAATATCCTTTTAAATTTTATTGCACG
66 TTCATCTGACTTAAACAATTGAATATCCGTTTAAATTTTATTACACG
25385092 TAAAGCTAATATTCAATGTTTAGAATTTTGAGAAATTGTGCCCTAACGTATTGGGCTGCGATTTC
1 TAAAGCTAATATTCAATGTTTAGAATTTTGAGAAATTGTGCCCTAACGTATTGGGCTGCGATTTC
* *
25385157 TTCATCTGACTTAAACAATTGAATATTCGTTTGAATTTTATTACACG
66 TTCATCTGACTTAAACAATTGAATATCCGTTTAAATTTTATTACACG
25385204 AGTTTTTTTT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (112 bp):
TAAAGCTAATATTCAATGTTTAGAATTTTGAGAAATTGTGCCCTAACGTATTGGGCTGCGATTTC
TTCATCTGACTTAAACAATTGAATATCCGTTTAAATTTTATTACACG
Found at i:25386660 original size:17 final size:17
Alignment explanation
Indices: 25386640--25386682 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
25386630 AAATATATGA
* *
25386640 GTATCAGAAAGATATAG
1 GTATCAAAAACATATAG
*
25386657 GTATCAAAAACATATGG
1 GTATCAAAAACATATAG
25386674 GTATCAAAA
1 GTATCAAAA
25386683 TCTAAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (17 bp):
GTATCAAAAACATATAG
Found at i:25393794 original size:22 final size:24
Alignment explanation
Indices: 25393760--25393803 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
25393750 ATTGAATCCA
25393760 ATTTAGAACAAGAA-ATAAAAACT
1 ATTTAGAACAAGAACATAAAAACT
*
25393783 ATTTTGAA-AAGAACATAAAAA
1 ATTTAGAACAAGAACATAAAAA
25393804 TCTAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (24 bp):
ATTTAGAACAAGAACATAAAAACT
Found at i:25395800 original size:25 final size:25
Alignment explanation
Indices: 25395767--25395818 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
25395757 TTTAAAAAAT
*
25395767 AATTGTCAATTATTAT-TTTAGATAA
1 AATTATCAATTATTATATTTA-ATAA
25395792 AATTATCAATTATTATATTTAATAA
1 AATTATCAATTATTATATTTAATAA
25395817 AA
1 AA
25395819 AAATTACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (25 bp):
AATTATCAATTATTATATTTAATAA
Found at i:25395821 original size:28 final size:27
Alignment explanation
Indices: 25395755--25395824 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
25395745 AACACATTCA
* *
25395755 ATTTTAA-AAAATAATTGTCAATTATT
1 ATTTTAATAAAAAAATTATCAATTATT
25395781 ATTTTAGAT---AAAATTATCAATTATT
1 ATTTTA-ATAAAAAAATTATCAATTATT
25395806 ATATTTAATAAAAAAATTA
1 AT-TTTAATAAAAAAATTA
25395825 CTATAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 18 0.50
26 10 0.28
27 1 0.03
28 7 0.19
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (27 bp):
ATTTTAATAAAAAAATTATCAATTATT
Found at i:25401164 original size:15 final size:15
Alignment explanation
Indices: 25401144--25401174 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25401134 TTTTGGATAG
25401144 TCGTGTTCATTCATT
1 TCGTGTTCATTCATT
25401159 TCGTGTTCATTCATT
1 TCGTGTTCATTCATT
25401174 T
1 T
25401175 GTATTAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.13, T:0.55
Consensus pattern (15 bp):
TCGTGTTCATTCATT
Found at i:25405430 original size:10 final size:10
Alignment explanation
Indices: 25405417--25405481 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
25405407 AAATTTAAAG
25405417 AAATATATAA
1 AAATATATAA
*
25405427 AAATACATAA
1 AAATATATAA
* * *
25405437 ATATTTTTAA
1 AAATATATAA
25405447 AAATATAATAA
1 AAATAT-ATAA
25405458 TAAAT-T-TAA
1 -AAATATATAA
*
25405467 AAATACATAA
1 AAATATATAA
25405477 AAATA
1 AAATA
25405482 AAAAGATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
8 4 0.10
9 3 0.07
10 27 0.64
11 4 0.10
12 4 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATATATAA
Found at i:25405447 original size:20 final size:20
Alignment explanation
Indices: 25405424--25405477 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
25405414 AAGAAATATA
**
25405424 TAAAAATACATAAATATTTT
1 TAAAAATACATAAATAAATT
*
25405444 TAAAAATATA-ATAATAAATT
1 TAAAAATACATA-AATAAATT
25405464 TAAAAATACATAAA
1 TAAAAATACATAAA
25405478 AATAAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATACATAAATAAATT
Found at i:25405733 original size:6 final size:6
Alignment explanation
Indices: 25405724--25405752 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
25405714 AAAAAATGAA
25405724 ATATTT ATATTT ATATTT ATATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATT
25405753 AAACAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:25411108 original size:21 final size:21
Alignment explanation
Indices: 25411083--25411200 Score: 123
Period size: 21 Copynumber: 5.6 Consensus size: 21
25411073 CATATGGGCA
*
25411083 TGTGTCTTAGCCACACGAGCG
1 TGTGTCTTGGCCACACGAGCG
* *
25411104 TGTGTCTTGGCCACACGGGCA
1 TGTGTCTTGGCCACACGAGCG
* *
25411125 TGTGTCTTGGCCACACGGGCA
1 TGTGTCTTGGCCACACGAGCG
* *
25411146 TGTGTCTTGTCCACACGAGTG
1 TGTGTCTTGGCCACACGAGCG
* *
25411167 TGTATCCTT-ACCACAC-AGGCG
1 TGTGT-CTTGGCCACACGA-GCG
25411188 TGTGTCTTGGCCA
1 TGTGTCTTGGCCA
25411201 TACAATCGTG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
20 4 0.05
21 75 0.91
22 3 0.04
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.27
Consensus pattern (21 bp):
TGTGTCTTGGCCACACGAGCG
Found at i:25411181 original size:63 final size:63
Alignment explanation
Indices: 25411078--25411200 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
25411068 TTGTACATAT
* * *
25411078 GGGCATGTGTCTTAGCCACACGAGCGTGTGTCTTGGCCACACGGGCATGTGTCTTGGCCACAC
1 GGGCATGTGTCTTAGCCACACGAGCGTGTATCTTGACCACACAGGCATGTGTCTTGGCCACAC
* *
25411141 GGGCATGTGTCTT-GTCCACACGAGTGTGTATCCTT-ACCACACAGGCGTGTGTCTTGGCCA
1 GGGCATGTGTCTTAG-CCACACGAGCGTGTAT-CTTGACCACACAGGCATGTGTCTTGGCCA
25411201 TACAATCGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.92
64 3 0.06
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (63 bp):
GGGCATGTGTCTTAGCCACACGAGCGTGTATCTTGACCACACAGGCATGTGTCTTGGCCACAC
Found at i:25411286 original size:21 final size:21
Alignment explanation
Indices: 25411260--25411304 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25411250 TGCTCAAACA
25411260 GGCGTGTCCCTCAACCACACG
1 GGCGTGTCCCTCAACCACACG
* *
25411281 GGCGTGTCCCTCAATCATACG
1 GGCGTGTCCCTCAACCACACG
25411302 GGC
1 GGC
25411305 ATGTGCCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.38, G:0.27, T:0.18
Consensus pattern (21 bp):
GGCGTGTCCCTCAACCACACG
Found at i:25417422 original size:15 final size:15
Alignment explanation
Indices: 25417399--25417428 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25417389 ATCTTTTTGG
25417399 TTTAATTTAATTTTT
1 TTTAATTTAATTTTT
*
25417414 TTTATTTTAATTTTT
1 TTTAATTTAATTTTT
25417429 CTCTCTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTAATTTAATTTTT
Found at i:25418161 original size:15 final size:15
Alignment explanation
Indices: 25418138--25418167 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25418128 ATTTTTTTGG
25418138 TTTAATTTAATTTTT
1 TTTAATTTAATTTTT
*
25418153 TTTATTTTAATTTTT
1 TTTAATTTAATTTTT
25418168 CTCTCTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTAATTTAATTTTT
Found at i:25421267 original size:31 final size:29
Alignment explanation
Indices: 25421207--25421267 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 29
25421197 AACAACCATG
25421207 TGACTTAAATAAAACTTTGAAAAGTTCAA
1 TGACTTAAATAAAACTTTGAAAAGTTCAA
*
25421236 TGACTTAAATGAAAACTTTTAAATAGTTCAA
1 TGACTTAAAT-AAAACTTTGAAA-AGTTCAA
25421267 T
1 T
25421268 AATCATTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.34
30 11 0.38
31 8 0.28
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (29 bp):
TGACTTAAATAAAACTTTGAAAAGTTCAA
Found at i:25425430 original size:87 final size:87
Alignment explanation
Indices: 25425313--25425665 Score: 526
Period size: 87 Copynumber: 4.1 Consensus size: 87
25425303 TGTAATCTTT
* ** * * * * * * *
25425313 GATCTGCTTCACTGTCGACGCAGGAGGGCAAGATATGCTATCCTTAACCAGCTCCACCGTAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCG
*
25425378 ATGGAGGTAAGGCTTTGTTTTC
66 ATGGAGGCAAGGCTTTGTTTTC
* *
25425400 GATCTGCTTCGTTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTTCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCG
* *
25425465 ATGGAGGCAAGGTTTTGTTTTT
66 ATGGAGGCAAGGCTTTGTTTTC
*
25425487 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTTCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCG
25425552 ATGGAGGCAAGGCTTTGTTTTC
66 ATGGAGGCAAGGCTTTGTTTTC
* * *
25425574 AATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACTAGCTCTACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCG
*
25425639 ATAGAGGCAAGGCTTTGTTTTC
66 ATGGAGGCAAGGCTTTGTTTTC
25425661 GATCT
1 GATCT
25425666 TCACTAATCT
Statistics
Matches: 242, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 242 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCG
ATGGAGGCAAGGCTTTGTTTTC
Found at i:25426871 original size:15 final size:15
Alignment explanation
Indices: 25426847--25426894 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
25426837 AGCCTCTCCA
*
25426847 TTTTACTTTTCATTT
1 TTTTATTTTTCATTT
25426862 TTTTATTTTTCA--T
1 TTTTATTTTTCATTT
*
25426875 TTTCATTTTTCATCTT
1 TTTTATTTTTCAT-TT
25426891 TTTT
1 TTTT
25426895 TTAAATCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 12 0.44
15 11 0.41
16 4 0.15
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTCATTT
Found at i:25426892 original size:21 final size:21
Alignment explanation
Indices: 25426845--25426892 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
25426835 TTAGCCTCTC
*
25426845 CATTTTAC-TTTTCATTTTTT
1 CATTTTTCATTTTCATTTTTT
*
25426865 TATTTTTCATTTTCA-TTTTT
1 CATTTTTCATTTTCATTTTTT
25426885 CATCTTTT
1 CAT-TTTT
25426893 TTTTAAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTCATTTTCATTTTTT
Found at i:25427323 original size:27 final size:27
Alignment explanation
Indices: 25427273--25427344 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
25427263 TCATATTTTA
25427273 TTTTGACTTTGATTGATTTCTCTTTTTGC
1 TTTTGACTTTGATT--TTTCTCTTTTTGC
* *
25427302 TTTTGACTTTGATTTTTTTCTTTTTGT
1 TTTTGACTTTGATTTTTCTCTTTTTGC
* *
25427329 TTTTTATTTTGATTTT
1 TTTTGACTTTGATTTT
25427345 GATTTTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 25 0.64
29 14 0.36
ACGTcount: A:0.10, C:0.08, G:0.11, T:0.71
Consensus pattern (27 bp):
TTTTGACTTTGATTTTTCTCTTTTTGC
Found at i:25427344 original size:13 final size:13
Alignment explanation
Indices: 25427309--25427363 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
25427299 TGCTTTTGAC
*
25427309 TTTGATTTTTTTCTT
1 TTTGA-TTTTTT-AT
25427324 TTTG-TTTTTTAT
1 TTTGATTTTTTAT
*
25427336 TTTGA-TTTTGAT
1 TTTGATTTTTTAT
*
25427348 TTTAATTTTTTAT
1 TTTGATTTTTTAT
25427361 TTT
1 TTT
25427364 TTTTGATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 15 0.44
13 15 0.44
15 4 0.12
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTGATTTTTTAT
Found at i:25427365 original size:33 final size:33
Alignment explanation
Indices: 25427302--25427367 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
25427292 CTCTTTTTGC
*
25427302 TTTTGACTTTGATTTTTTTCTTTTTGTTTTTTA
1 TTTTGACTTTGATTTTTTTCTTTATGTTTTTTA
* *
25427335 TTTTGATTTTGATTTTAATTT-TTTATTTTTTTT
1 TTTTGACTTTGATTTT--TTTCTTTATGTTTTTT
25427368 GATTGAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 15 0.54
34 10 0.36
35 3 0.11
ACGTcount: A:0.12, C:0.03, G:0.08, T:0.77
Consensus pattern (33 bp):
TTTTGACTTTGATTTTTTTCTTTATGTTTTTTA
Found at i:25434781 original size:26 final size:26
Alignment explanation
Indices: 25434752--25434827 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
25434742 AGTTTAAAAA
25434752 TAATAA-AGTAGATTATAAATTATATT
1 TAATAATAGT-GATTATAAATTATATT
* *
25434778 TAATAATAGTTATTTTAAATTATATT
1 TAATAATAGTGATTATAAATTATATT
*
25434804 T--T-ATAGT-ATTATATATTATGATT
1 TAATAATAGTGATTATAAATTAT-ATT
25434827 T
1 T
25434828 TAGTAAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.23
23 9 0.20
24 1 0.02
26 21 0.48
27 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (26 bp):
TAATAATAGTGATTATAAATTATATT
Found at i:25434884 original size:17 final size:17
Alignment explanation
Indices: 25434862--25434895 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25434852 AATACTAAGA
25434862 ATTTTATCAAATTATAT
1 ATTTTATCAAATTATAT
*
25434879 ATTTTATTAAATTATAT
1 ATTTTATCAAATTATAT
25434896 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATCAAATTATAT
Found at i:25434966 original size:18 final size:17
Alignment explanation
Indices: 25434943--25434977 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25434933 ATATATTATG
25434943 ATTTTAGTAAATTTATAT
1 ATTTTAGTAAA-TTATAT
*
25434961 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
25434978 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:25434997 original size:26 final size:26
Alignment explanation
Indices: 25434885--25434997 Score: 70
Period size: 26 Copynumber: 4.2 Consensus size: 26
25434875 ATATATTTTA
* *
25434885 TTAAATTATATTTAATAATAATAATT
1 TTAAATTATATTTAATAATAATTATG
25434911 TTAAATTATACTTTATAGTATTATATATTATG
1 TTAAATTATA-TTTA-A-TA--ATA-ATTATG
** * * * *
25434943 ATTTTAGTAAATTT-AT-AT-ATTTTA
1 -TTAAATTATATTTAATAATAATTATG
25434967 TTAAATTATATTTAATAATAATTATG
1 TTAAATTATATTTAATAATAATTATG
25434993 TTAAA
1 TTAAA
25434998 ATATGATTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
23 9 0.14
24 6 0.10
25 2 0.03
26 21 0.33
27 4 0.06
28 1 0.02
29 3 0.05
30 1 0.02
31 3 0.05
32 7 0.11
33 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATG
Found at i:25435025 original size:145 final size:144
Alignment explanation
Indices: 25434943--25435346 Score: 720
Period size: 145 Copynumber: 2.8 Consensus size: 144
25434933 ATATATTATG
* *
25434943 ATTTTAGTAAATTTATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAAATATGATTA
1 ATTTTATTAAA-TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTA
*
25435007 AATTATTTATTATTTATATTAATAATCTTATTAAAATTTAATAACAATAATAAATTCATATAACA
65 AATTATTTATTACTTATATT-ATAATCTTATTAAAATTTAATAACAATAATAAATTCATATAACA
25435072 ATATTGATTATTAAGA
129 ATATTGATTATTAAGA
25435088 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
*
25435153 ATTATTTATTACTGATATTAATAATCTTATTAAAATTTAATAACAATAATAAATTCATATAACAA
66 ATTATTTATTACTTATATT-ATAATCTTATTAAAATTTAATAACAATAATAAATTCATATAACAA
25435218 TATTGATTATTAAGA
130 TATTGATTATTAAGA
25435233 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
*
25435298 ATTATTTATTACTAATATTAATAATCTTATTAAAATTTAATAACAATAA
66 ATTATTTATTACTTATATT-ATAATCTTATTAAAATTTAATAACAATAA
25435347 CAATAATCAT
Statistics
Matches: 253, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
144 11 0.04
145 242 0.96
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (144 bp):
ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
ATTATTTATTACTTATATTATAATCTTATTAAAATTTAATAACAATAATAAATTCATATAACAAT
ATTGATTATTAAGA
Done.