Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 64
Found at i:2571393 original size:42 final size:42
Alignment explanation
Indices: 2571334--2571456 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
2571324 ATTAATCGGG
* *
2571334 CTCTTGAATAGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAATGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
** *
2571376 CTCTTGAATGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGGTGGGA-GGGACCTCTTGAACGATGACAGGGGC
* * *
2571418 CTCTTGAACGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAATGGTGGGAG-GGACCTCTTGAACGATGACAGG
2571457 TGAGTCAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 62 0.93
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:2571394 original size:21 final size:21
Alignment explanation
Indices: 2571334--2571448 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 21
2571324 ATTAATCGGG
** *
2571334 CTCTTGAATAGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
2571355 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
* *
2571376 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
2571397 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
2571418 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
2571439 CTCTTGAACG
1 CTCTTGAACG
2571449 ATGACAGGTG
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 3 0.04
21 64 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:2571965 original size:19 final size:20
Alignment explanation
Indices: 2571930--2571972 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2571920 AATAGTTTCT
2571930 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
* *
2571950 GAAACTT-AAATTGCAACGC
1 GAAACTTAAAATCGCAACAC
2571969 GAAA
1 GAAA
2571973 ATGACCATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.49, C:0.21, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:2571987 original size:20 final size:20
Alignment explanation
Indices: 2571962--2572005 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2571952 AACTTAAATT
2571962 GCAACGC-GAAAATGACCATC
1 GCAACGCAG-AAATGACCATC
*
2571982 GCAACGCAGAAATGACTATC
1 GCAACGCAGAAATGACCATC
2572002 GCAA
1 GCAA
2572006 TGAGAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.11
Consensus pattern (20 bp):
GCAACGCAGAAATGACCATC
Found at i:2572068 original size:14 final size:14
Alignment explanation
Indices: 2572049--2572079 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2572039 ATGCGAAATA
2572049 AAAATCGCAACGAG
1 AAAATCGCAACGAG
*
2572063 AAAATCGCAACGCG
1 AAAATCGCAACGAG
2572077 AAA
1 AAA
2572080 CCAAAATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (14 bp):
AAAATCGCAACGAG
Found at i:2572069 original size:33 final size:33
Alignment explanation
Indices: 2572023--2572098 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
2572013 TTGACTATCA
* * * *
2572023 CAACGGGATAATCGCAATGCGAAATAAAAATCG
1 CAACGAGAAAATCGCAACGCGAAACAAAAATCG
*
2572056 CAACGAGAAAATCGCAACGCGAAACCAAAATCG
1 CAACGAGAAAATCGCAACGCGAAACAAAAATCG
*
2572089 CAACGTGAAA
1 CAACGAGAAA
2572099 CTAAATTCGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
CAACGAGAAAATCGCAACGCGAAACAAAAATCG
Found at i:2572108 original size:19 final size:19
Alignment explanation
Indices: 2572063--2572099 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2572053 TCGCAACGAG
2572063 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
*
2572082 AAAATCGCAACGTGAAAC
1 AAAATCGCAACGCGAAAC
2572100 TAAATTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:2572140 original size:14 final size:14
Alignment explanation
Indices: 2572121--2572153 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2572111 TGCGATTTTC
2572121 ATTTTCACATTGCG
1 ATTTTCACATTGCG
*
2572135 ATTTTCACGTTGCG
1 ATTTTCACATTGCG
2572149 ATTTT
1 ATTTT
2572154 TATTTCGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (14 bp):
ATTTTCACATTGCG
Found at i:2572181 original size:33 final size:34
Alignment explanation
Indices: 2572110--2572183 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
2572100 TAAATTCGCG
* *
2572110 TTGCGATTTTCATTTTCACATTGCGATTTTCACG
1 TTGCGATTTTCATTTTCACATTGCGATTATCACA
* * *
2572144 TTGCGATTTTTA-TTTCGCATTGCGATTATCCCA
1 TTGCGATTTTCATTTTCACATTGCGATTATCACA
2572177 TTGCGAT
1 TTGCGAT
2572184 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCACATTGCGATTATCACA
Found at i:2572192 original size:33 final size:33
Alignment explanation
Indices: 2572123--2572203 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
2572113 CGATTTTCAT
* * * ** *
2572123 TTTCACATTGCGATTTTCACGTTGCGATTTTTA
1 TTTCGCATTGCGATTATCACATTGCGATAGTCA
*
2572156 TTTCGCATTGCGATTATCCCATTGCGATAGTCA
1 TTTCGCATTGCGATTATCACATTGCGATAGTCA
*
2572189 TTTCCGCGTTGCGAT
1 TTT-CGCATTGCGAT
2572204 AGTCATTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (33 bp):
TTTCGCATTGCGATTATCACATTGCGATAGTCA
Found at i:2572202 original size:20 final size:20
Alignment explanation
Indices: 2572177--2572223 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2572167 GATTATCCCA
2572177 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
2572197 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCG
2572217 TTGCGAT
1 TTGCGAT
2572224 TTTTAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:2574163 original size:20 final size:20
Alignment explanation
Indices: 2574140--2574254 Score: 97
Period size: 20 Copynumber: 5.8 Consensus size: 20
2574130 TCTGAAACTT
2574140 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
2574160 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
2574180 ACTATCGCAACACTAATTTG
1 AAAATCGCAACACGAAAATG
** * **
2574200 ACTATCACAATGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
2574219 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
2574239 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
2574255 TTAAACTATC
Statistics
Matches: 73, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
19 11 0.15
20 62 0.85
ACGTcount: A:0.47, C:0.22, G:0.15, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2574668 original size:22 final size:22
Alignment explanation
Indices: 2574639--2574689 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
2574629 GATGGAGATA
2574639 GACGGATTTCGTCAG-AGATGGG
1 GACGGATTTCGT-AGAAGATGGG
*
2574661 GATGGATTTCGTAGAAGATGGG
1 GACGGATTTCGTAGAAGATGGG
2574683 GACGGAT
1 GACGGAT
2574690 GTCGCCATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.25, C:0.10, G:0.41, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTAGAAGATGGG
Found at i:2574880 original size:20 final size:19
Alignment explanation
Indices: 2574855--2574969 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 19
2574845 ATTTTGTATT
2574855 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGT-AGA
* **
2574875 ATCGCGTTGAGATTATGTATT
1 ATCGCGTTGCGA-TA-GTAGA
*
2574896 ATCACGTTGCGATAGTTAGA
1 ATCGCGTTGCGATAG-TAGA
* * * **
2574916 ATCACGTTTCAATTATGTATT
1 ATCGCGTTGCGA-TA-GTAGA
*
2574937 ATTGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGT-AGA
2574957 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
2574970 TTACATATTC
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 3 0.04
20 40 0.56
21 25 0.35
22 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (19 bp):
ATCGCGTTGCGATAGTAGA
Found at i:2574894 original size:41 final size:41
Alignment explanation
Indices: 2574833--2574970 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
2574823 GTGCTTTGAA
* * *
2574833 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGAGATTATGTATTATCGCGTTGCGATAGTCAG
* *
2574874 AATCGCGTTGAGATTATGTATTATCACGTTGCGATAGTTAG
1 AATCGCGTTGAGATTATGTATTATCGCGTTGCGATAGTCAG
* * *
2574915 AATCACGTTTCA-ATTATGTATTATTGCGTTGCGATAGTCAG
1 AATCGCG-TTGAGATTATGTATTATCGCGTTGCGATAGTCAG
*
2574956 AATCGCGTTGCGATT
1 AATCGCGTTGAGATT
2574971 TACATATTCG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.02
41 77 0.94
42 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (41 bp):
AATCGCGTTGAGATTATGTATTATCGCGTTGCGATAGTCAG
Found at i:2576310 original size:3 final size:3
Alignment explanation
Indices: 2576302--2576431 Score: 118
Period size: 3 Copynumber: 41.3 Consensus size: 3
2576292 TCAAATATAT
*
2576302 TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TGA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* **
2576349 TAA TAAA TAAA TAA TGA TAA TAAA TAAA TAAA TAA TAA TAA TAA TGG
1 TAA T-AA T-AA TAA TAA TAA T-AA T-AA T-AA TAA TAA TAA TAA TAA
* * * *
2576396 TAA -AA AAA GAT TAA TAA TAA TAA TAA TGA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2576432 GTTAAAAAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
2 2 0.02
3 82 0.76
4 24 0.22
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2576431 original size:38 final size:38
Alignment explanation
Indices: 2576303--2576441 Score: 133
Period size: 38 Copynumber: 3.7 Consensus size: 38
2576293 CAAATATATT
* * * *
2576303 AATAATAATAAATAATAATAATAATA-ATAATAATAATA
1 AATAATGAT-AATAATGATAAAAAAAGATAATAATAATA
* *
2576341 AATAATGATAATAA--ATAAATAATGATAATAAATAAATA
1 AATAATGATAATAATGATAAAAAAAGATAAT-AAT-AATA
* *
2576379 AATAATAATAATAATGGTAAAAAAAGATTAATAATAAT-
1 AATAATGATAATAATGATAAAAAAAGA-TAATAATAATA
*
2576417 AATAATGATAATAATGTTAAAAAAA
1 AATAATGATAATAATGATAAAAAAA
2576442 TGGTGATTAC
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
35 5 0.06
36 5 0.06
37 8 0.10
38 48 0.57
39 3 0.04
40 11 0.13
41 4 0.05
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (38 bp):
AATAATGATAATAATGATAAAAAAAGATAATAATAATA
Found at i:2576720 original size:40 final size:41
Alignment explanation
Indices: 2576665--2576744 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
2576655 GAAATTGAAA
*
2576665 AATATACTTT-AAAAAATTTAGAAATAAAACTATAAACACC
1 AATATACTTTAAAAAAATCTAGAAATAAAACTATAAACACC
2576705 AATATACTTTAAAAAAATCTAGAAATAAAACTATAAACAC
1 AATATACTTTAAAAAAATCTAGAAATAAAACTATAAACAC
2576745 ATGTTTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 10 0.26
41 28 0.74
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (41 bp):
AATATACTTTAAAAAAATCTAGAAATAAAACTATAAACACC
Found at i:2576806 original size:23 final size:23
Alignment explanation
Indices: 2576762--2576806 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
2576752 TGTCCGGGTC
* *
2576762 TTAAAAAATATTATTATTATTTA
1 TTAAAAAATATAATTATCATTTA
2576785 TTAACAAAATATAATTA-CATTT
1 TTAA-AAAATATAATTATCATTT
2576807 TTACAGGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAAAAATATAATTATCATTTA
Found at i:2579248 original size:24 final size:23
Alignment explanation
Indices: 2579221--2579269 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
2579211 AAATTAATAC
*
2579221 AAAA-TCACCAATTTTTTTCAAAAT
1 AAAAGTCA-CAATTGTTTT-AAAAT
*
2579245 AAAAGTCATAATTGTTTTAAAAT
1 AAAAGTCACAATTGTTTTAAAAT
2579268 AA
1 AA
2579270 TATTTAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 12 0.55
25 3 0.14
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (23 bp):
AAAAGTCACAATTGTTTTAAAAT
Found at i:2582155 original size:17 final size:16
Alignment explanation
Indices: 2582115--2582156 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2582105 AGATAAAAGC
*
2582115 AAAGAAA-AAAAGCAA
1 AAAGAAATAAAAGAAA
*
2582130 AAATAAATAAAAGAAA
1 AAAGAAATAAAAGAAA
2582146 AAAGACAATAA
1 AAAGA-AATAA
2582157 GCACATGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.07
Consensus pattern (16 bp):
AAAGAAATAAAAGAAA
Found at i:2583374 original size:36 final size:37
Alignment explanation
Indices: 2583334--2583441 Score: 112
Period size: 36 Copynumber: 3.0 Consensus size: 37
2583324 ACAAAGTGTC
* * * *
2583334 GTCTCACTAGAGATAGTTTTCT-TATAAACTAATTTT
1 GTCTCACTAGAGACAGTTTTATCTAAAAACAAATTTT
*
2583370 GTCTCACTTGAGACAGTTTTATCTAAAAACAAATTTT
1 GTCTCACTAGAGACAGTTTTATCTAAAAACAAATTTT
* * * * *
2583407 GTCTCGCTTGAGACA-ATTTCTCTCAAAACAAATTT
1 GTCTCACTAGAGACAGTTTTATCTAAAAACAAATTT
2583442 CGTATCGCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 36 0.58
37 26 0.42
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (37 bp):
GTCTCACTAGAGACAGTTTTATCTAAAAACAAATTTT
Found at i:2583417 original size:37 final size:36
Alignment explanation
Indices: 2583359--2583461 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 36
2583349 GTTTTCTTAT
* *
2583359 AAACTAATTTTGTCTCACTTGAGACAGTTTTATCTAA
1 AAACAAATTTTGTCTCGCTTGAGACA-TTTTATCTAA
* * *
2583396 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCA
1 AAACAAATTTTGTCTCGCTTGAGACATTTTATCTAA
* *
2583432 AAACAAATTTCGTATCGCTTGAGACATTTT
1 AAACAAATTTTGTCTCGCTTGAGACATTTT
2583462 TACTTTGAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
36 34 0.59
37 24 0.41
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCGCTTGAGACATTTTATCTAA
Found at i:2583572 original size:15 final size:15
Alignment explanation
Indices: 2583552--2583580 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2583542 TTTGTCTCAG
2583552 TTAAGACAATCTTTC
1 TTAAGACAATCTTTC
2583567 TTAAGACAATCTTT
1 TTAAGACAATCTTT
2583581 GAAATTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
TTAAGACAATCTTTC
Found at i:2583601 original size:63 final size:64
Alignment explanation
Indices: 2583534--2583688 Score: 147
Period size: 66 Copynumber: 2.4 Consensus size: 64
2583524 GTTTTTCCCA
* * *
2583534 AAACAAACTTTGTCTCAGTTAAGACAATCTTT-CTT-AAGAC-AATCTTTGAA-ATTGTTTCTCT
1 AAACAAA-TTTGTCTCACTTAAGACAAT-TTTCCTTAAACACAAATCTTTGAATA-TGTTTCCCT
2583595 TG
63 TG
* * * *
2583597 AAACAAGTTTTGTCTCCCTTGAGACAATTTTCCTTGAAACACAAATCTTTGAGTATGTTTCCCTT
1 AAACAA-ATTTGTCTCACTTAAGACAATTTTCCTT-AAACACAAATCTTTGAATATGTTTCCCTT
2583662 G
64 G
* *
2583663 AAACAAATTGTGTCTCTCTTGAGACA
1 AAACAAATT-TGTCTCACTTAAGACA
2583689 GTTTCTGTTG
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
62 3 0.04
63 26 0.34
65 6 0.08
66 40 0.53
67 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (64 bp):
AAACAAATTTGTCTCACTTAAGACAATTTTCCTTAAACACAAATCTTTGAATATGTTTCCCTTG
Found at i:2584057 original size:134 final size:131
Alignment explanation
Indices: 2583705--2584058 Score: 347
Period size: 131 Copynumber: 2.7 Consensus size: 131
2583695 GTTGAAACAA
* *
2583705 ATTCCTAAAGATGGACAATCATCTTCATCGCGTAGGAA-TCGTGTCATCCACCGACCAGACCGCC
1 ATTCCTAAAGATGGAC-ATCATCTTCATCGCGTAAGAAGTCGTGTCATCCACCGACCAGACCTCC
* * * * **
2583769 TCGTCACATAGGAGTTGTGTCACCCTTAGATAAACAATCATCCTCATCATGTTGGAACCGTGTTA
65 TCATCACATAGGAGATGTGTCACCCCTAGATAAACAACCATCCTCATCATGTAAGAACCGTGTTA
2583834 TC
130 TC
* * * ** * * *
2583836 ATCCCTAAAGAT-GACCTACCATCCTCATCATGT-AGAAGTCGTGTCATCTACCAACCAGGCCTC
1 ATTCCTAAAGATGGA-C-ATCATCTTCATCGCGTAAGAAGTCGTGTCATCCACCGACCAGACCTC
* ** * * * * *
2583899 CTCATCGCATAGGAGCCGTATCACCCCTAGATAATCAACCGTCCTCATCGTGTAAGAACTGTGTT
64 CTCATCACATAGGAGATGTGTCACCCCTAGATAAACAACCATCCTCATCATGTAAGAACCGTGTT
2583964 ATC
129 ATC
** * **
2583967 ACCCTTCCTAAAGATGGACAGTTGTCTTCATCGCGTAAGAAGT-GTGTCATCCACCGACTAGATA
1 A---TTCCTAAAGATGGACA-TCATCTTCATCGCGTAAGAAGTCGTGTCATCCACCGACCAGACC
*
2584031 TCCTCATCACGTAGGAGATGTGTCACCC
62 TCCTCATCACATAGGAGATGTGTCACCC
2584059 TTAGTGACCC
Statistics
Matches: 173, Mismatches: 42, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
130 5 0.03
131 101 0.58
133 1 0.01
134 58 0.34
135 8 0.05
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (131 bp):
ATTCCTAAAGATGGACATCATCTTCATCGCGTAAGAAGTCGTGTCATCCACCGACCAGACCTCCT
CATCACATAGGAGATGTGTCACCCCTAGATAAACAACCATCCTCATCATGTAAGAACCGTGTTAT
C
Found at i:2585257 original size:23 final size:23
Alignment explanation
Indices: 2585230--2585280 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
2585220 AGTGAGCTTA
2585230 GGGTTTCAAAATAACCCTTAAGT
1 GGGTTTCAAAATAACCCTTAAGT
2585253 GGGTTTCAAAATAACCCTTAAGT
1 GGGTTTCAAAATAACCCTTAAGT
2585276 GGGTT
1 GGGTT
2585281 ATATCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (23 bp):
GGGTTTCAAAATAACCCTTAAGT
Found at i:2590618 original size:27 final size:27
Alignment explanation
Indices: 2590564--2590618 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
2590554 AAGAATTGAG
*
2590564 AGAGAAAAAGTAAAAGTTAAAGATGAA
1 AGAGAAAAAGTAAAAGTGAAAGATGAA
2590591 AGAGAAAAAGATAATAA-TGAAAGA-GAA
1 AGAGAAAAAG-TAA-AAGTGAAAGATGAA
2590618 A
1 A
2590619 ATAAAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 14 0.56
28 9 0.36
29 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (27 bp):
AGAGAAAAAGTAAAAGTGAAAGATGAA
Found at i:2596811 original size:11 final size:11
Alignment explanation
Indices: 2596795--2596819 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2596785 AAAATGGTAA
2596795 AAACAGTAAAT
1 AAACAGTAAAT
2596806 AAACAGTAAAT
1 AAACAGTAAAT
2596817 AAA
1 AAA
2596820 ATGATAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAACAGTAAAT
Found at i:2598863 original size:24 final size:24
Alignment explanation
Indices: 2598836--2598885 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
2598826 AAATTAATAC
* *
2598836 AAAA-TCACAATTTTTTTTCAAAAT
1 AAAAGTCACAACTATTTTT-AAAAT
*
2598860 AAAAGTCATAACTATTTTTAAAAT
1 AAAAGTCACAACTATTTTTAAAAT
2598884 AA
1 AA
2598886 TATTTAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAAGTCACAACTATTTTTAAAAT
Found at i:2609778 original size:43 final size:44
Alignment explanation
Indices: 2609717--2609812 Score: 122
Period size: 46 Copynumber: 2.2 Consensus size: 44
2609707 GCATTTCGTA
* * *
2609717 GCTAAATTTGTGGTATATTGTGGC-ATATTTTTTTACAAACGCC
1 GCTAAATGTATGGTATATTGCGGCTATATTTTTTTACAAACGCC
* *
2609760 GCTAAATGTATGGTATATTGCGGCGTTTTTTTTTTTTACAAACGCC
1 GCTAAATGTATGGTATATTGCGGC--TATATTTTTTTACAAACGCC
2609806 GCTAAAT
1 GCTAAAT
2609813 AACACAGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 21 0.47
46 24 0.53
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (44 bp):
GCTAAATGTATGGTATATTGCGGCTATATTTTTTTACAAACGCC
Found at i:2610118 original size:21 final size:21
Alignment explanation
Indices: 2610093--2610164 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
2610083 ATTCTTCACA
*
2610093 TCTCTGCTGATATGCTGCTTC
1 TCTCTGCTGCTATGCTGCTTC
*
2610114 TCTCTG-TGCTACCGCTGCTTC
1 TCTCTGCTGCTA-TGCTGCTTC
* *
2610135 TCTATATGCTGCTGCTGCTGCTTC
1 TC--TCTGCTGCT-ATGCTGCTTC
2610159 TCTCTG
1 TCTCTG
2610165 TGTTGCCGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.10
21 16 0.40
22 3 0.08
23 3 0.08
24 14 0.35
ACGTcount: A:0.07, C:0.32, G:0.19, T:0.42
Consensus pattern (21 bp):
TCTCTGCTGCTATGCTGCTTC
Found at i:2610132 original size:24 final size:24
Alignment explanation
Indices: 2610105--2610175 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 24
2610095 TCTGCTGATA
*
2610105 TGCTGCTTCTCTCTGTGCT-AC-C
1 TGCTGCTTCTCTCTGTGCTGCCGC
* * *
2610127 -GCTGCTTCTCTATATGCTGCTGC
1 TGCTGCTTCTCTCTGTGCTGCCGC
*
2610150 TGCTGCTTCTCTCTGTGTTGCCGC
1 TGCTGCTTCTCTCTGTGCTGCCGC
2610174 TG
1 TG
2610176 TTTCTTTCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 16 0.42
23 1 0.03
24 21 0.55
ACGTcount: A:0.04, C:0.32, G:0.23, T:0.41
Consensus pattern (24 bp):
TGCTGCTTCTCTCTGTGCTGCCGC
Found at i:2610198 original size:45 final size:45
Alignment explanation
Indices: 2610105--2610201 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
2610095 TCTGCTGATA
**
2610105 TGCTGCTTCTCTCTGTGCTACCGCTGCTTCTCTATATGCTGCTGC
1 TGCTGCTTCTCTCTGTGCTACCGCTGCTTCTCTATATGCTGCCAC
* * * * * * *
2610150 TGCTGCTTCTCTCTGTGTTGCCGCTGTTTCTTTCTCTGCTTCCAC
1 TGCTGCTTCTCTCTGTGCTACCGCTGCTTCTCTATATGCTGCCAC
2610195 TGCTGCT
1 TGCTGCT
2610202 CTGGCTGCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.04, C:0.33, G:0.20, T:0.43
Consensus pattern (45 bp):
TGCTGCTTCTCTCTGTGCTACCGCTGCTTCTCTATATGCTGCCAC
Found at i:2610232 original size:21 final size:21
Alignment explanation
Indices: 2610106--2610234 Score: 96
Period size: 21 Copynumber: 6.0 Consensus size: 21
2610096 CTGCTGATAT
* * *
2610106 GCTGCTTCTCTCTGTGCTACC
1 GCTGCTGCTCTCTCTGCTTCC
* * * * *
2610127 GCTGCTTCTCTATATGCTGCT
1 GCTGCTGCTCTCTCTGCTTCC
*
2610148 GCTGCTGCTTCTCTCTGTGTTGCC
1 GCTGCTGC-TCTCTCTG-CTT-CC
* * *
2610172 GCTGTTTCTTTCTCTGCTTCC
1 GCTGCTGCTCTCTCTGCTTCC
* **
2610193 ACTGCTGCTCTGGCTGCTTCC
1 GCTGCTGCTCTCTCTGCTTCC
2610214 GCTGCTGCTCTCTCTGCTTCC
1 GCTGCTGCTCTCTCTGCTTCC
2610235 CTTGCTTCAT
Statistics
Matches: 82, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
21 59 0.72
22 8 0.10
23 8 0.10
24 7 0.09
ACGTcount: A:0.03, C:0.36, G:0.20, T:0.41
Consensus pattern (21 bp):
GCTGCTGCTCTCTCTGCTTCC
Found at i:2611848 original size:12 final size:12
Alignment explanation
Indices: 2611831--2611859 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2611821 AATGTCAATT
2611831 TTCATAAATATC
1 TTCATAAATATC
2611843 TTCATAAATATC
1 TTCATAAATATC
2611855 TTCAT
1 TTCAT
2611860 GTTATGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (12 bp):
TTCATAAATATC
Found at i:2611951 original size:36 final size:36
Alignment explanation
Indices: 2611911--2611981 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
2611901 AAAATATCGA
2611911 CATTGGTGTAGCTAATTATTCTAGGTAAACTATATT
1 CATTGGTGTAGCTAATTATTCTAGGTAAACTATATT
*
2611947 CATTGGTGTAGTTAATTATTCTAGGTAAACTATAT
1 CATTGGTGTAGCTAATTATTCTAGGTAAACTATAT
2611982 ATAGTAATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (36 bp):
CATTGGTGTAGCTAATTATTCTAGGTAAACTATATT
Found at i:2614376 original size:40 final size:41
Alignment explanation
Indices: 2614332--2614426 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
2614322 ATTACACCTA
* **
2614332 TTGCGGCATTTGT-ACAAAAATGTCGCTAATGTATAAATA-T
1 TTGCGGCATTTGTGA-AAAAATGCCGCTAAAATATAAATATT
* *
2614372 TTGCGACGTTTGTTGAAAAAATGCCGCTAAAATATAAATATT
1 TTGCGGCATTTG-TGAAAAAATGCCGCTAAAATATAAATATT
*
2614414 TTGTGGCATTTGT
1 TTGCGGCATTTGT
2614427 TAACCAAACG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
40 10 0.23
41 23 0.52
42 11 0.25
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (41 bp):
TTGCGGCATTTGTGAAAAAATGCCGCTAAAATATAAATATT
Found at i:2615587 original size:22 final size:22
Alignment explanation
Indices: 2615562--2615612 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2615552 CACATTTTCA
*
2615562 AAAGCTATTATTTTCCTATTCG
1 AAAGCAATTATTTTCCTATTCG
* *
2615584 AAAGCAATTATTTTTCTTTTCG
1 AAAGCAATTATTTTCCTATTCG
2615606 AAAGCAA
1 AAAGCAA
2615613 AAAAACACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (22 bp):
AAAGCAATTATTTTCCTATTCG
Found at i:2616191 original size:82 final size:81
Alignment explanation
Indices: 2616012--2616283 Score: 285
Period size: 82 Copynumber: 3.3 Consensus size: 81
2616002 GTTCATATTT
* * * * * *
2616012 TTGCGGCGTTTTTTGCACAAACGCCACTATAAACAATACTATTGCGGCGTTTTTTTATTAAACGC
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACAACACTATTGCGGCG-TTTTTAAATAAACGC
* *
2616077 CGCGAAATTACTTCTCTA
65 CGCTAAATTAC-CCTCTA
* ** * * *
2616095 TAGCATCGTTTGTTGAACAAACGCCACTATAAACAACACTATAGCGGCGTTTTTAAACAAACGCC
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACAACACTATTGCGGCGTTTTTAAATAAACGCC
2616160 GCTAAATTACCACTCTA
66 GCTAAATTACC-CTCTA
* * * * *
2616177 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACATCTCTATTTCGGCG-TTTGAGCTATAAACG
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACAACACTATTGCGGCGTTTTTA--AATAAACG
*
2616241 CTGCTAAATTACCCTCTA
64 CCGCTAAATTACCCTCTA
* * *
2616259 TTACGGTGTTTGTTTAAAAAACGCC
1 TTGCGGCGTTTGTTGAAAAAACGCC
2616284 GCTAAAGTAT
Statistics
Matches: 159, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
81 4 0.03
82 95 0.60
83 60 0.38
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (81 bp):
TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACAACACTATTGCGGCGTTTTTAAATAAACGCC
GCTAAATTACCCTCTA
Found at i:2616229 original size:41 final size:40
Alignment explanation
Indices: 2616012--2616229 Score: 147
Period size: 41 Copynumber: 5.3 Consensus size: 40
2616002 GTTCATATTT
* * * *
2616012 TTGCGGCGTTTTTTGCACAAACGCCACTATAAACAATACTA
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACACT-CTA
* * ** * * *
2616053 TTGCGGCGTTTTTTTATTAAACGCCGCGA-AATTACTTCTCTA
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAA--AC-ACTCTA
* ** * *
2616095 TAGCATCGTTTGTTGAACAAACGCCACTATAAACAACACTA
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAAC-ACTCTA
* *
2616136 TAGCGGCGTTT-TT-AAACAAACGCCGCTA-AATTACCACTCTA
1 TTGCGGCGTTTGTTGAAA-AAACGCCACTATAA--A-CACTCTA
2616177 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACATCTCTA
1 TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACA-CTCTA
*
2616218 TTTCGGCGTTTG
1 TTGCGGCGTTTG
2616230 AGCTATAAAC
Statistics
Matches: 137, Mismatches: 28, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
39 4 0.03
40 16 0.12
41 71 0.52
42 38 0.28
43 8 0.06
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (40 bp):
TTGCGGCGTTTGTTGAAAAAACGCCACTATAAACACTCTA
Found at i:2616281 original size:41 final size:41
Alignment explanation
Indices: 2616139--2616289 Score: 132
Period size: 41 Copynumber: 3.7 Consensus size: 41
2616129 AACACTATAG
*
2616139 CGGCG-TT-TTTAAACAAACGCCGCTAAATTACCACTCTATTG
1 CGGCGTTTGTTTAAA-AAACGCCGCTAAATTACC-CTCTATTA
* * * *
2616180 CGGCGTTTGTTGAAAAAACGCCACTATAA--ACATCTCTATTT
1 CGGCGTTTGTTTAAAAAACGCCGCTA-AATTAC-CCTCTATTA
** * *
2616221 CGGCGTTTGAGCT-ATAAACGCTGCTAAATTACCCTCTATTA
1 CGGCGTTTG-TTTAAAAAACGCCGCTAAATTACCCTCTATTA
*
2616262 CGGTGTTTGTTTAAAAAACGCCGCTAAA
1 CGGCGTTTGTTTAAAAAACGCCGCTAAA
2616290 GTATCATTTT
Statistics
Matches: 85, Mismatches: 17, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
40 3 0.04
41 61 0.72
42 14 0.16
43 7 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
CGGCGTTTGTTTAAAAAACGCCGCTAAATTACCCTCTATTA
Found at i:2618685 original size:15 final size:15
Alignment explanation
Indices: 2618652--2618690 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2618642 TTAGGGTGTA
*
2618652 TTCGGTTCGGTTCGG
1 TTCGGTTCGGTTCAG
*
2618667 TTCGGTTCGGTTCAT
1 TTCGGTTCGGTTCAG
*
2618682 TTCGATTCG
1 TTCGGTTCG
2618691 ATTTTTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.21, G:0.31, T:0.44
Consensus pattern (15 bp):
TTCGGTTCGGTTCAG
Found at i:2618693 original size:5 final size:5
Alignment explanation
Indices: 2618652--2618679 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2618642 TTAGGGTGTA
2618652 TTCGG TTCGG TTCGG TTCGG TTCGG TTC
1 TTCGG TTCGG TTCGG TTCGG TTCGG TTC
2618680 ATTTCGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.36, T:0.43
Consensus pattern (5 bp):
TTCGG
Found at i:2620581 original size:35 final size:35
Alignment explanation
Indices: 2620530--2620648 Score: 184
Period size: 35 Copynumber: 3.3 Consensus size: 35
2620520 ATATAGTTTT
* * *
2620530 TTTTTAAAATAATTTTGAAAACATATAATATATGG
1 TTTTAAAAATATTTTTGAAAACGTATAATATATGG
2620565 TTTTAAAAATATTTTTGAAAACGTATAATATATGG
1 TTTTAAAAATATTTTTGAAAACGTATAATATATGG
*
2620600 TTTTAAAAATATTTTTGAAAACGTATAATATATGT
1 TTTTAAAAATATTTTTGAAAACGTATAATATATGG
2620635 TTTTGAAAACATAT
1 TTTT-AAAA-ATAT
2620649 AATATATGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 70 0.90
36 4 0.05
37 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTTAAAAATATTTTTGAAAACGTATAATATATGG
Found at i:2620637 original size:23 final size:23
Alignment explanation
Indices: 2620611--2620669 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
2620601 TTTAAAAATA
*
2620611 TTTTTGAAAACGTATAATATATG
1 TTTTTGAAAACATATAATATATG
2620634 TTTTTGAAAACATATAATATATG
1 TTTTTGAAAACATATAATATATG
* *
2620657 GTTTTAAAAACAT
1 TTTTTGAAAACAT
2620670 TTCTGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTTTGAAAACATATAATATATG
Found at i:2620666 original size:58 final size:62
Alignment explanation
Indices: 2620576--2620709 Score: 197
Period size: 58 Copynumber: 2.2 Consensus size: 62
2620566 TTTAAAAATA
* * * *
2620576 TTTTTGAAAACGTATAATATATGGTTTTAAAAATATTTTTG-AAAACGTATA-AT-ATAT-G
1 TTTTTGAAAACATATAATATATGGTTTTAAAAACATTTCTGAAAAACATATATATAATATAG
2620634 TTTTTGAAAACATATAATATATGGTTTTAAAAACATTTCTGAAAAACATATATATAATATAG
1 TTTTTGAAAACATATAATATATGGTTTTAAAAACATTTCTGAAAAACATATATATAATATAG
2620696 -TTTTGAAAACATAT
1 TTTTTGAAAACATAT
2620710 TTTGAAAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
58 38 0.56
59 9 0.13
60 2 0.03
61 18 0.26
62 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (62 bp):
TTTTTGAAAACATATAATATATGGTTTTAAAAACATTTCTGAAAAACATATATATAATATAG
Found at i:2620699 original size:38 final size:38
Alignment explanation
Indices: 2620638--2620729 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
2620628 TATATGTTTT
*
2620638 TGAAAACATATA-AT-ATATGGTTTTAAAAACAT-TTC
1 TGAAAACATATATATAATATAGTTTTAAAAACATATTC
* *
2620673 TGAAAAACATATATATAATATAGTTTTGAAAACATATTT
1 TG-AAAACATATATATAATATAGTTTTAAAAACATATTC
2620712 TGAAAACATATATATAAT
1 TGAAAACATATATATAAT
2620730 TTTTAAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
35 2 0.04
36 10 0.20
37 2 0.04
38 32 0.64
39 4 0.08
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (38 bp):
TGAAAACATATATATAATATAGTTTTAAAAACATATTC
Found at i:2620714 original size:13 final size:13
Alignment explanation
Indices: 2620696--2620722 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2620686 TATAATATAG
2620696 TTTTGAAAACATA
1 TTTTGAAAACATA
2620709 TTTTGAAAACATA
1 TTTTGAAAACATA
2620722 T
1 T
2620723 ATATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTGAAAACATA
Found at i:2621713 original size:15 final size:16
Alignment explanation
Indices: 2621688--2621720 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2621678 AGCAATACAT
2621688 ATGTAATGTAAAAGGC
1 ATGTAATGTAAAAGGC
2621704 ATGT-ATGTAAAAGGC
1 ATGTAATGTAAAAGGC
2621719 AT
1 AT
2621721 TGATCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (16 bp):
ATGTAATGTAAAAGGC
Found at i:2622109 original size:5 final size:5
Alignment explanation
Indices: 2622095--2622143 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
2622085 GTCCGTCCGT
* * * *
2622095 CTCGT CTCGG CTCGG CACGA CACGG CTCGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
2622144 TGGTCGTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.06, C:0.41, G:0.35, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:2622152 original size:6 final size:6
Alignment explanation
Indices: 2622141--2622195 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
2622131 TCGGCTCGGC
* *
2622141 TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
2622189 TCGTGG T
1 TCGTGG T
2622196 AATACGTGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.04, C:0.16, G:0.49, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:2622495 original size:22 final size:22
Alignment explanation
Indices: 2622470--2622524 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2622460 TCAGGAGTTA
* *
2622470 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2622492 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2622514 CGGGAGTTATA
1 CAGGAGTTATA
2622525 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2628065 original size:6 final size:6
Alignment explanation
Indices: 2628054--2628114 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
2628044 TCTCGGCTCG
* * *
2628054 GGTCGT GGTCGT GGTC-- GATCGA GGTCGA GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
2628100 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
2628115 AATACGTGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
4 3 0.06
6 47 0.94
ACGTcount: A:0.05, C:0.16, G:0.49, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:2628409 original size:21 final size:22
Alignment explanation
Indices: 2628385--2628438 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2628375 ATCAGGAGTA
*
2628385 CAGGAGTTATTTGAT-TAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2628406 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2628428 CGGGAGTTATA
1 CAGGAGTTATA
2628439 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2634873 original size:15 final size:16
Alignment explanation
Indices: 2634853--2634883 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2634843 TTATTTAAAG
2634853 ATCACAT-ACGAAAAA
1 ATCACATAACGAAAAA
2634868 ATCACATAACGAAAAA
1 ATCACATAACGAAAAA
2634884 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (16 bp):
ATCACATAACGAAAAA
Found at i:2634969 original size:32 final size:33
Alignment explanation
Indices: 2634931--2635008 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
2634921 ATAATGCATG
* *
2634931 GAAAATAAAATACAATAAATAC-ATAAATAATA
1 GAAAATAAAATACAATAAACACAAAAAATAATA
* *
2634963 GAAAATAAAATTCAATAAACCCAAAAAATAATA
1 GAAAATAAAATACAATAAACACAAAAAATAATA
*
2634996 -AAAATAGAATACA
1 GAAAATAAAATACA
2635009 TGTTAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 30 0.77
33 9 0.23
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.19
Consensus pattern (33 bp):
GAAAATAAAATACAATAAACACAAAAAATAATA
Found at i:2637887 original size:23 final size:23
Alignment explanation
Indices: 2637835--2637887 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2637825 TAAACAAAAT
2637835 TAATAAATATCTTATTTTTATAA
1 TAATAAATATCTTATTTTTATAA
*
2637858 TATATAAATAT-TTATTTTTATTTA
1 TA-ATAAATATCTTATTTTTA-TAA
2637882 TAATAA
1 TAATAA
2637888 TTGAGATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATAAATATCTTATTTTTATAA
Found at i:2638265 original size:32 final size:32
Alignment explanation
Indices: 2638229--2638331 Score: 111
Period size: 31 Copynumber: 3.3 Consensus size: 32
2638219 TACTAATCTG
* * *
2638229 ACCCGAAAATCAACCGGTATGATATTGACTCT
1 ACCCGAAAATCAACCGATATGGTATTGACTCA
* * *
2638261 ACCCG-AAATCAACCGATTTGGTATTAACTCG
1 ACCCGAAAATCAACCGATATGGTATTGACTCA
* * *
2638292 ACCCGAAAACCCACCGATATGGTTTTGAC-CA
1 ACCCGAAAATCAACCGATATGGTATTGACTCA
2638323 ACCCGAAAA
1 ACCCGAAAA
2638332 CTAATCGATG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 36 0.61
32 23 0.39
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (32 bp):
ACCCGAAAATCAACCGATATGGTATTGACTCA
Found at i:2638510 original size:14 final size:14
Alignment explanation
Indices: 2638475--2638526 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
2638465 TCTCAAATCG
* *
2638475 AAATGACCGGACTCG
1 AAATGACCCGA-TCT
*
2638490 AAATGACCCGGTCT
1 AAATGACCCGATCT
*
2638504 GAATGA-CCGATCT
1 AAATGACCCGATCT
2638517 AAATGACCCG
1 AAATGACCCG
2638527 TTTGCGACCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.37
14 10 0.33
15 9 0.30
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (14 bp):
AAATGACCCGATCT
Found at i:2640571 original size:31 final size:31
Alignment explanation
Indices: 2640536--2640618 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
2640526 TCAGACCATT
*
2640536 GCATACGCATTGAACAGAACAATTTAACGTG
1 GCATATGCATTGAACAGAACAATTTAACGTG
* *
2640567 GCATATGCATCGAACAGAATAATTTAACGTG
1 GCATATGCATTGAACAGAACAATTTAACGTG
2640598 GCATATGCATTGAACAGAACA
1 GCATATGCATTGAACAGAACA
2640619 GATTACAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (31 bp):
GCATATGCATTGAACAGAACAATTTAACGTG
Found at i:2644298 original size:21 final size:21
Alignment explanation
Indices: 2644272--2644312 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2644262 GTAGGCCAGG
*
2644272 CTCAGGCCTATTAAAGCCTGA
1 CTCAGGCCTATTAAAACCTGA
2644293 CTCAGGCCTATTAAAACCTG
1 CTCAGGCCTATTAAAACCTG
2644313 GCCTGGCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
CTCAGGCCTATTAAAACCTGA
Found at i:2651632 original size:5 final size:5
Alignment explanation
Indices: 2651622--2651897 Score: 100
Period size: 5 Copynumber: 53.4 Consensus size: 5
2651612 AAAAAAAATT
* * *
2651622 AATAA AATAA AATAAA AATAAA AATAAA AATAA AACAA AACAA AACAA
1 AATAA AATAA AAT-AA AAT-AA AAT-AA AATAA AATAA AATAA AATAA
* *
2651670 AACAA AAT-A AAT-A AACAA AATAA AATAA AATAA AATAAA AATAAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA
*** * * * * * *
2651721 AATAA GGGAA GAA-AT AATGGA ATTAA AA-AA CAGAA ACAAAA ACATAAA
1 AATAA AATAA -AATAA AAT-AA AATAA AATAA AATAA A-ATAA A-AT-AA
* *
2651769 AAAAGA AATAA AATAA AATAAAA AATAA AATAA AAT-A AA-AA ATTAA
1 AATA-A AATAA AATAA AAT--AA AATAA AATAA AATAA AATAA AATAA
* * ** * ** * * *
2651815 AATAA AATTAA TAATAC AAT-G TGTATA TATAA TGTAG TATTA AAT-A
1 AATAA AA-TAA -AATAA AATAA AATA-A AATAA AATAA AATAA AATAA
*
2651861 AATAA AATAA AGTAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
2651898 GAAATATATA
Statistics
Matches: 215, Mismatches: 37, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
4 22 0.10
5 128 0.60
6 55 0.26
7 10 0.05
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:2651641 original size:6 final size:6
Alignment explanation
Indices: 2651625--2651725 Score: 92
Period size: 6 Copynumber: 17.2 Consensus size: 6
2651615 AAAAATTAAT
2651625 AAAAT- AAAATA AAAATA AAAATA AAAATA AAACA-A AACAA-A ACAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AA-AATA A-AAATA
2651672 CAAAATA AATAA-A CAAAAT- AAAAT- AAAAT- AAAATA AAAATA AAAATA
1 -AAAATA AA-AATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
2651719 AAAATA A
1 AAAATA A
2651726 GGGAAGAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 19
0.82 0.00 0.18
Matches are distributed among these distances:
5 20 0.23
6 57 0.66
7 9 0.10
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:2651988 original size:6 final size:6
Alignment explanation
Indices: 2651949--2651975 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2651939 ATCAAAAGGT
2651949 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
2651976 TATATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:2652098 original size:3 final size:3
Alignment explanation
Indices: 2652030--2652087 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
2652020 GGGAATATAT
2652030 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2652078 ATA ATA ATA A
1 ATA ATA ATA A
2652088 AGAAAATAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2654199 original size:21 final size:21
Alignment explanation
Indices: 2654157--2654207 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2654147 AGTTGAGCTT
*
2654157 TGAATTTGATATCCTTCGTTG
1 TGAAATTGATATCCTTCGTTG
*
2654178 TGAAGTTGATATCCTATC-TTG
1 TGAAATTGATATCCT-TCGTTG
2654199 T-AAATTGAT
1 TGAAATTGAT
2654208 TACTATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 18 0.67
22 2 0.07
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (21 bp):
TGAAATTGATATCCTTCGTTG
Found at i:2660844 original size:21 final size:21
Alignment explanation
Indices: 2660820--2660864 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2660810 CATTTGGTCC
2660820 TCCA-ATTTTTTGATTTTCTCT
1 TCCATATTTTTTGATTTT-TCT
* *
2660841 TCCATCTTTTTTGCTTTTTCT
1 TCCATATTTTTTGATTTTTCT
2660862 TCC
1 TCC
2660865 TCATCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.09, C:0.24, G:0.04, T:0.62
Consensus pattern (21 bp):
TCCATATTTTTTGATTTTTCT
Found at i:2661374 original size:21 final size:20
Alignment explanation
Indices: 2661348--2661388 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2661338 ATGAATGTAA
2661348 AAACATGGAAAATAGAAAAAT
1 AAACATGGAAAA-AGAAAAAT
*
2661369 AAACATGGAAAAATAAAAAT
1 AAACATGGAAAAAGAAAAAT
2661389 GCATAGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (20 bp):
AAACATGGAAAAAGAAAAAT
Found at i:2664750 original size:11 final size:10
Alignment explanation
Indices: 2664722--2664772 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
2664712 AAATAGCTAG
2664722 ATAAATAAATA
1 ATAAA-AAATA
2664733 TATAAAAAGATA
1 -ATAAAAA-ATA
*
2664745 ATAAAAAACA
1 ATAAAAAATA
2664755 A-AAAAAATA
1 ATAAAAAATA
2664764 ATAATAAAA
1 ATAA-AAAA
2664773 GGCTAATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.24
10 5 0.15
11 13 0.38
12 8 0.24
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:2664819 original size:9 final size:9
Alignment explanation
Indices: 2664799--2664851 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
2664789 ATGAAAATGA
2664799 AAAATAAAAC
1 AAAAT-AAAC
2664809 AAAATAAAC
1 AAAATAAAC
**
2664818 AAAATAAGT
1 AAAATAAAC
2664827 AAAATAAA-
1 AAAATAAAC
* *
2664835 TAAATAAAT
1 AAAATAAAC
2664844 AAAATAAA
1 AAAATAAA
2664852 ATAAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 7 0.19
9 25 0.68
10 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (9 bp):
AAAATAAAC
Found at i:2664838 original size:22 final size:22
Alignment explanation
Indices: 2664799--2664862 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
2664789 ATGAAAATGA
*
2664799 AAAATAAAACAAAATAAACAAAAT
1 AAAATAAAA-TAAATAAA-AAAAT
* *
2664823 -AAGTAAAATAAATAAATAAAT
1 AAAATAAAATAAATAAAAAAAT
2664844 AAAATAAAATAAA-AAAAAA
1 AAAATAAAATAAATAAAAAA
2664863 GGGAAGAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.26
22 18 0.53
23 7 0.21
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAATAAAATAAATAAAAAAAT
Found at i:2664848 original size:13 final size:13
Alignment explanation
Indices: 2664787--2664860 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
2664777 AATCTAAAAA
*
2664787 AAATGAAAATGAA-
1 AAAT-AAAATAAAT
*
2664800 AAATAAAACAAAAT
1 AAATAAAA-TAAAT
* *
2664814 AAACAAAATAAGT
1 AAATAAAATAAAT
2664827 AAA-ATAAATAAAT
1 AAATA-AAATAAAT
2664840 AAATAAAATAAAAT
1 AAATAAAAT-AAAT
2664854 AAA-AAAA
1 AAATAAAA
2664861 AAGGGAAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
12 5 0.10
13 30 0.60
14 15 0.30
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:2664862 original size:5 final size:5
Alignment explanation
Indices: 2664781--2664861 Score: 59
Period size: 5 Copynumber: 17.0 Consensus size: 5
2664771 AAGGCTAATC
* * *
2664781 TAAAA -AAAA TGAAAA TGAAAAA TAAAA CAAAA T-AAA CAAAA T-AAG
1 TAAAA TAAAA T-AAAA T--AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
2664826 TAAAA T-AAA T-AAA T-AAA TAAAA TAAAA TAAAA -AAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
2664862 AGGGAAGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
4 26 0.41
5 27 0.43
6 5 0.08
7 5 0.08
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
TAAAA
Found at i:2664928 original size:17 final size:18
Alignment explanation
Indices: 2664902--2664944 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
2664892 AACAAAAACA
2664902 TAAAAA-AG-AAATAAAT
1 TAAAAATAGAAAATAAAT
2664918 TAAAAATAGAAAATAAAT
1 TAAAAATAGAAAATAAAT
2664936 TAAAGAATA
1 TAAA-AATA
2664945 AAAGTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.25
17 2 0.08
18 12 0.50
19 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
TAAAAATAGAAAATAAAT
Found at i:2664956 original size:2 final size:2
Alignment explanation
Indices: 2664949--2664986 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2664939 AGAATAAAAG
2664949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2664987 ATGTAGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2665888 original size:25 final size:24
Alignment explanation
Indices: 2665860--2665906 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2665850 TTGCCTTACT
* *
2665860 TTTCTTTTGTATTTTCTTTGTATGA
1 TTTCTTGTGTA-TTTCTTGGTATGA
2665885 TTTCTTGTGTATTTCTTGGTAT
1 TTTCTTGTGTATTTCTTGGTAT
2665907 TTGCATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.11, C:0.09, G:0.15, T:0.66
Consensus pattern (24 bp):
TTTCTTGTGTATTTCTTGGTATGA
Found at i:2669889 original size:2 final size:2
Alignment explanation
Indices: 2669882--2669919 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2669872 CTCACCTGAG
2669882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2669920 GGTGTTTGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2670778 original size:20 final size:20
Alignment explanation
Indices: 2670749--2670787 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2670739 CCTTAAATTA
* *
2670749 TTAAATATATTAAATTATAC
1 TTAAAAATATAAAATTATAC
2670769 TTAAAAATATAAAATTATA
1 TTAAAAATATAAAATTATA
2670788 TGAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAATATAAAATTATAC
Found at i:2670796 original size:20 final size:21
Alignment explanation
Indices: 2670750--2670801 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
2670740 CTTAAATTAT
*
2670750 TAAATATATTAAATTATACTTAA
1 TAAATATA--AAATTATACTGAA
2670773 -AAATATAAAATTATA-TGAA
1 TAAATATAAAATTATACTGAA
2670792 TAAAT-TAAAA
1 TAAATATAAAA
2670802 AGCAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.30
20 12 0.44
22 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAATATAAAATTATACTGAA
Found at i:2672039 original size:3 final size:3
Alignment explanation
Indices: 2672033--2672070 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2672023 TATTTATTAT
2672033 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2672071 ATAAATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2672078 original size:23 final size:23
Alignment explanation
Indices: 2672005--2672074 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
2671995 TTTTGGGCCT
* * *
2672005 ATAATAGTAATAATAATTTATTTA
1 ATAATAATAATAATAATATA-ATA
* *
2672029 TTATTAATAATAATAATATAATA
1 ATAATAATAATAATAATATAATA
2672052 ATAATAATAATAATAATA-AATA
1 ATAATAATAATAATAATATAATA
2672074 A
1 A
2672075 ATAAATGGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.13
23 18 0.46
24 16 0.41
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (23 bp):
ATAATAATAATAATAATATAATA
Found at i:2672468 original size:137 final size:130
Alignment explanation
Indices: 2672312--2672922 Score: 531
Period size: 123 Copynumber: 4.7 Consensus size: 130
2672302 AATCTAGCAA
2672312 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
2672377 GAACTCATTCTGGAAATACTGATCCTCAAAAGAGGTGTCGTTGATTCAACTTTATATGTGATGAA
66 GAACTC-TTCTGGAAATATTGATCCTCAAAAGAGGTGTC-TT-ATT-AACTTCATA-GTGATGAA
2672442 TTAAGG
126 TTAA-G
*
2672448 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCTCATTA
1 -AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * * *
2672513 TGAACTTCCTCTGGAAATATTGATCCCTCGAATGAGGTTCTTTTCTTATTTAACTCCATAAGTGA
65 TGAAC-TCTTCTGGAAATATTGAT-CCTCAAAAGAGG----TGTCTTA-TTAACTTCAT-AGTGA
* *
2672578 CGAATCAAG
122 TGAATTAAG
*
2672587 TTAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
1 --AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
* * *** * * * * *
2672652 ATGAACTCTATCTGGAAATGTTGATGCT-AATCTA--TGTC--CTT--CTGTGATAGAG-TCAAG
64 ATGAACTCT-TCTGGAAATATTGATCCTCAAAAGAGGTGTCTTATTAACT-TCATAGTGATGAAT
2672709 TAA-
127 TAAG
2672712 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * ** * ** * * * **
2672777 GAACTCTACCTGGCAATGTTGAT-GT----TGATCTATCTCCTT--CTGTGATAGAGTTG-AGCA
66 GAACTCT-TCTGGAAATATTGATCCTCAAAAGAGGTGTCTTATTAACT-TCATAGTGATGAATTA
2672834 A-
129 AG
*
2672835 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCT-TCTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCT-TCAGATGAGTTCTTCTCATTA
* *
2672899 TGAACTCTATGTGGCAATATTGAT
65 TGAACTCT-TCTGGAAATATTGAT
2672923 GTTGATCTAT
Statistics
Matches: 415, Mismatches: 42, Indels: 48
0.82 0.08 0.10
Matches are distributed among these distances:
119 1 0.00
121 3 0.01
122 2 0.00
123 185 0.45
124 1 0.00
126 4 0.01
127 5 0.01
128 2 0.00
129 2 0.00
132 3 0.01
137 82 0.20
138 14 0.03
139 5 0.01
140 98 0.24
141 5 0.01
142 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (130 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTTCTGGAAATATTGATCCTCAAAAGAGGTGTCTTATTAACTTCATAGTGATGAATTAAG
Found at i:2672643 original size:140 final size:137
Alignment explanation
Indices: 2672312--2672782 Score: 512
Period size: 140 Copynumber: 3.5 Consensus size: 137
2672302 AATCTAGCAA
2672312 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * ** * *
2672377 GAACTCATTCTGGAAATACTGATCCTCAAAAGAGGTGTCGTTGATTCAACTTTATATGTGATGAA
66 GAACTCAATCTGGAAATATTGATCCTCAAAAGAGGTGTCGTTGATTCAACTCCATAAGTGACGAA
*
2672442 TTAAGGC
131 TCAAGGC
*
2672449 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
2672514 GAACTTC-CTCTGGAAATATTGATCCCTCGAATGAGGT-TCTTTTCTTATTTAACTCCATAAGTG
66 GAAC-TCAATCTGGAAATATTGAT-CCTCAAAAGAGGTGTC--GT-TGATTCAACTCCATAAGTG
**
2672577 ACGAATCAAGTT
126 ACGAATCAAGGC
*
2672589 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
2672654 GAACTCTATCTGGAAATGTTGATGCT----A-A----TC--T-ATGTC--CTTC-T--GTGATAG
66 GAACTCAATCTGGAAATATTGATCCTCAAAAGAGGTGTCGTTGAT-TCAACTCCATAAGTGA-CG
* **
2672702 AGTCAAGTAA
129 AATCAAG-GC
2672712 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
2672777 GAACTC
66 GAACTC
2672783 TACCTGGCAA
Statistics
Matches: 297, Mismatches: 28, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
121 4 0.01
122 7 0.02
123 71 0.24
124 3 0.01
125 2 0.01
126 2 0.01
131 2 0.01
134 1 0.00
137 84 0.28
138 13 0.04
139 5 0.02
140 103 0.35
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (137 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCAATCTGGAAATATTGATCCTCAAAAGAGGTGTCGTTGATTCAACTCCATAAGTGACGAA
TCAAGGC
Found at i:2672722 original size:123 final size:123
Alignment explanation
Indices: 2672589--2673045 Score: 702
Period size: 123 Copynumber: 3.7 Consensus size: 123
2672579 GAATCAAGTT
*
2672589 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC-TCAGATGAGTTCTTCTCATTA
* * * * *
2672653 TGAACTCTATCTGGAAATGTTGATGCTAATCTATGTCCTTCTGTGATAGAGTCAAGTAA
65 TGAACTCTATCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
2672712 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC-TCAGATGAGTTCTTCTCATTA
* * *
2672776 TGAACTCTACCTGGCAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTTGAGCAA
65 TGAACTCTATCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
*
2672835 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTCAGATGAGTTCTTCTCATTAT
* * * * *
2672900 GAACTCTATGTGGCAATATTGATGTTGATCTATCTCCTTTTGTGATAGAGTCGACCAA
66 GAACTCTATCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
* *
2672958 AAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTTCATTCTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTCAGATGAGTTCTTCTCATTAT
* * *
2673023 GAACTCTCTCTAGACATGTTGAT
66 GAACTCTATCTGGAAATGTTGAT
2673046 CCATCGAGTG
Statistics
Matches: 308, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
123 306 0.99
124 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTCAGATGAGTTCTTCTCATTAT
GAACTCTATCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
Found at i:2673583 original size:21 final size:22
Alignment explanation
Indices: 2673559--2673599 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
2673549 AGATGTTTAT
2673559 AAAAGAATAAA-TT-GAATTTCG
1 AAAAG-ATAAACTTGGAATTTCG
2673580 AAAAGATAAACTTGGAATTT
1 AAAAGATAAACTTGGAATTT
2673600 ATTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (22 bp):
AAAAGATAAACTTGGAATTTCG
Found at i:2673969 original size:7 final size:6
Alignment explanation
Indices: 2673953--2673985 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2673943 TCATTTTTAT
*
2673953 TTTTTA TTTTTC TTTTTC TTTTTC TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
2673986 CTTCAAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:2675761 original size:21 final size:23
Alignment explanation
Indices: 2675737--2675779 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2675727 AAAAAAATTA
2675737 AAGTAA-ATATATATTT-TTTAT
1 AAGTAAGATATATATTTATTTAT
*
2675758 AAGTAAGATATTTATTTATTTA
1 AAGTAAGATATATATTTATTTA
2675780 AAAATATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
AAGTAAGATATATATTTATTTAT
Found at i:2675888 original size:20 final size:20
Alignment explanation
Indices: 2675865--2675903 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2675855 CCTTAAATTA
* *
2675865 TTAAATATATCAAATTATAC
1 TTAAAAATATAAAATTATAC
2675885 TTAAAAATATAAAATTATA
1 TTAAAAATATAAAATTATA
2675904 TGATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATATAAAATTATAC
Found at i:2675937 original size:28 final size:28
Alignment explanation
Indices: 2675885--2675950 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
2675875 CAAATTATAC
2675885 TTAAAAATATAAAATTATATGATTA-AA
1 TTAAAAATATAAAATTATATGATTAGAA
2675912 TTAAAAAGTAATAAAATT-TACT-ATTAGAA
1 TTAAAAA-T-ATAAAATTATA-TGATTAGAA
*
2675941 ATAAAAATAT
1 TTAAAAATAT
2675951 TTAAAACTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 9 0.26
28 8 0.24
29 17 0.50
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (28 bp):
TTAAAAATATAAAATTATATGATTAGAA
Found at i:2677197 original size:3 final size:3
Alignment explanation
Indices: 2677191--2677231 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
2677181 ATTTATTTAT
* *
2677191 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2677232 AAAATGGGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:2677210 original size:14 final size:14
Alignment explanation
Indices: 2677191--2677230 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
2677181 ATTTATTTAT
2677191 TAATAATAATAATA
1 TAATAATAATAATA
2677205 TAATAATAATAATA
1 TAATAATAATAATA
*
2677219 -AA-AATAAAAATA
1 TAATAATAATAATA
2677231 AAAAATGGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 14 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:2677235 original size:14 final size:14
Alignment explanation
Indices: 2677192--2677235 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2677182 TTTATTTATT
* *
2677192 AATAATAATAATAT
1 AATAATAATAAAAA
2677206 AATAATAATAATAAA
1 AATAATAATAA-AAA
*
2677221 AATAAAAATAAAAA
1 AATAATAATAAAAA
2677235 A
1 A
2677236 TGGGCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAATAATAAAAA
Found at i:2679030 original size:20 final size:20
Alignment explanation
Indices: 2679007--2679152 Score: 231
Period size: 20 Copynumber: 7.3 Consensus size: 20
2678997 TTCGTGCAAG
2679007 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGCATC
*
2679027 GATGCACAGTAGGATGCATC
1 GATGCACAGCAGGATGCATC
*
2679047 GATGCACAGCATGATGCATC
1 GATGCACAGCAGGATGCATC
2679067 GATGCACAGCAGGATGCAT-
1 GATGCACAGCAGGATGCATC
2679086 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGCATC
* * *
2679106 GATACACAACAAGATGCATC
1 GATGCACAGCAGGATGCATC
*
2679126 GATGCACATCAGGATGCATC
1 GATGCACAGCAGGATGCATC
2679146 GATGCAC
1 GATGCAC
2679153 TAAGTACATT
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
19 19 0.17
20 96 0.83
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (20 bp):
GATGCACAGCAGGATGCATC
Found at i:2679104 original size:79 final size:79
Alignment explanation
Indices: 2679007--2679152 Score: 238
Period size: 79 Copynumber: 1.8 Consensus size: 79
2678997 TTCGTGCAAG
* ** * *
2679007 GATGCACAGCAGGATGCATCGATGCACAGTAGGATGCATCGATGCACAGCATGATGCATCGATGC
1 GATGCACAGCAGGATGCATCGATACACAACAAGATGCATCGATGCACAGCAGGATGCATCGATGC
2679072 ACAGCAGGATGCAT
66 ACAGCAGGATGCAT
*
2679086 GATGCACAGCAGGATGCATCGATACACAACAAGATGCATCGATGCACATCAGGATGCATCGATGC
1 GATGCACAGCAGGATGCATCGATACACAACAAGATGCATCGATGCACAGCAGGATGCATCGATGC
2679151 AC
66 AC
2679153 TAAGTACATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (79 bp):
GATGCACAGCAGGATGCATCGATACACAACAAGATGCATCGATGCACAGCAGGATGCATCGATGC
ACAGCAGGATGCAT
Found at i:2679220 original size:42 final size:42
Alignment explanation
Indices: 2679172--2679270 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
2679162 TCGAAATGGA
*
2679172 GTGCATGGATGCACTGCA-TGGTGCATCGATGCACTAGTACAG
1 GTGCATGGATGCACTGCAGGGGTGCATCGATGCACT-GTACAG
* **
2679214 GTGCATGGATGCACTGCAGGGGTGCATGGATGCACTGTAGGG
1 GTGCATGGATGCACTGCAGGGGTGCATCGATGCACTGTACAG
*
2679256 GTGCGTGGATGCACT
1 GTGCATGGATGCACT
2679271 TTGACTCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 36 0.71
43 15 0.29
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.23
Consensus pattern (42 bp):
GTGCATGGATGCACTGCAGGGGTGCATCGATGCACTGTACAG
Found at i:2679239 original size:21 final size:21
Alignment explanation
Indices: 2679172--2679270 Score: 119
Period size: 21 Copynumber: 4.7 Consensus size: 21
2679162 TCGAAATGGA
*
2679172 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
* * **
2679192 GTGCATCGATGCACTAGTACAG
1 GTGCATGGATGCACT-GCAGGG
2679214 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
*
2679235 GTGCATGGATGCACTGTAGGG
1 GTGCATGGATGCACTGCAGGG
*
2679256 GTGCGTGGATGCACT
1 GTGCATGGATGCACT
2679271 TTGACTCAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.21
21 39 0.57
22 15 0.22
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.23
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:2679367 original size:25 final size:26
Alignment explanation
Indices: 2679339--2679387 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2679329 GAATAAATTC
2679339 AATT-AAGTCCAAAAACCATTTTGTA
1 AATTCAAGTCCAAAAACCATTTTGTA
2679364 AATTCAAGTCCAAAAACCATTTTG
1 AATTCAAGTCCAAAAACCATTTTG
2679388 CCTTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTCAAGTCCAAAAACCATTTTGTA
Found at i:2679524 original size:21 final size:21
Alignment explanation
Indices: 2679498--2679537 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2679488 TTGTTTAATG
2679498 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
2679519 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
2679538 CCAATTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:2679621 original size:21 final size:20
Alignment explanation
Indices: 2679576--2679623 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2679566 TAAGCTCCCC
2679576 CTTTTTCATTAAGAAATTGA
1 CTTTTTCATTAAGAAATTGA
2679596 CTTTTTCATTAAGAAATTGA
1 CTTTTTCATTAAGAAATTGA
*
2679616 ATTTTTCA
1 CTTTTTCA
2679624 AACCAAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (20 bp):
CTTTTTCATTAAGAAATTGA
Found at i:2682049 original size:23 final size:23
Alignment explanation
Indices: 2682019--2682071 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
2682009 AATCAACAAC
2682019 CGGAATGGTTTGCAAAGAGGGGT
1 CGGAATGGTTTGCAAAGAGGGGT
2682042 CGGAATGGTTTGCAAAGAGGGGT
1 CGGAATGGTTTGCAAAGAGGGGT
2682065 CGGAATG
1 CGGAATG
2682072 ATTTTTGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.43, T:0.21
Consensus pattern (23 bp):
CGGAATGGTTTGCAAAGAGGGGT
Found at i:2682714 original size:20 final size:20
Alignment explanation
Indices: 2682689--2682755 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
2682679 TTCGTGTATG
*
2682689 GATGCACAGCAGGATGCATC
1 GATGCACATCAGGATGCATC
2682709 GATGCACATCAGGATGCATC
1 GATGCACATCAGGATGCATC
*
2682729 GATGCACATCAGGATACATC
1 GATGCACATCAGGATGCATC
2682749 GATGCAC
1 GATGCAC
2682756 TAAGTGCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (20 bp):
GATGCACATCAGGATGCATC
Found at i:2682822 original size:21 final size:21
Alignment explanation
Indices: 2682796--2682853 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
2682786 CACTAGTGCA
* *
2682796 GGTGCATGGATACACTGTAGG
1 GGTGCATGGATGCACTGCAGG
*
2682817 GGTGCATGGATGCATTGCAGG
1 GGTGCATGGATGCACTGCAGG
2682838 GGTGCATGGATGCACT
1 GGTGCATGGATGCACT
2682854 TTGACACCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.24
Consensus pattern (21 bp):
GGTGCATGGATGCACTGCAGG
Found at i:2682968 original size:25 final size:26
Alignment explanation
Indices: 2682940--2682988 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2682930 GAATAAATAC
2682940 AATT-AAGTCCAAAAACCATTTTGTA
1 AATTCAAGTCCAAAAACCATTTTGTA
2682965 AATTCAAGTCCAAAAACCATTTTG
1 AATTCAAGTCCAAAAACCATTTTG
2682989 CCTTAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTCAAGTCCAAAAACCATTTTGTA
Found at i:2685703 original size:21 final size:21
Alignment explanation
Indices: 2685644--2685704 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
2685634 AAGGCCACTT
* *
2685644 ATATGTCCTGAAGGACCACAT
1 ATATGTCCCGAAGGACCACAC
* * *
2685665 AGATATCCC-AGAGAACCACAC
1 ATATGTCCCGA-AGGACCACAC
2685686 ATATGTCCCGAAGGACCAC
1 ATATGTCCCGAAGGACCAC
2685705 TCCTTAAGGA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (21 bp):
ATATGTCCCGAAGGACCACAC
Found at i:2692573 original size:21 final size:21
Alignment explanation
Indices: 2692549--2692595 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2692539 ATTACTGAGA
*
2692549 ACCACATAGATGTCCTGAAGG
1 ACCACACAGATGTCCTGAAGG
* *
2692570 ACCATACATATGTCCTGAAGG
1 ACCACACAGATGTCCTGAAGG
2692591 ACCAC
1 ACCAC
2692596 TCCTTAAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
ACCACACAGATGTCCTGAAGG
Found at i:2697899 original size:39 final size:39
Alignment explanation
Indices: 2697842--2697964 Score: 147
Period size: 39 Copynumber: 3.2 Consensus size: 39
2697832 CCTGTACACC
* * *
2697842 CGGTAAGGGCTTACCCTGTGCATAAAGTAGAGGAGCCTG
1 CGGTAAGGTCTTATCCTGTGCATAAAGAAGAGGAGCCTG
* * * * *
2697881 TGGTAAGGTCTTATCCTGTGCACAAAGCATAGGAGCCTA
1 CGGTAAGGTCTTATCCTGTGCATAAAGAAGAGGAGCCTG
* *
2697920 CGGTAAGGTCTTATCATGTGCATAAACAAGAGGAGCCTG
1 CGGTAAGGTCTTATCCTGTGCATAAAGAAGAGGAGCCTG
*
2697959 CAGTAA
1 CGGTAA
2697965 CGGTAAGGAC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (39 bp):
CGGTAAGGTCTTATCCTGTGCATAAAGAAGAGGAGCCTG
Found at i:2698021 original size:50 final size:50
Alignment explanation
Indices: 2697961--2698114 Score: 265
Period size: 50 Copynumber: 3.1 Consensus size: 50
2697951 GGAGCCTGCA
* *
2697961 GTAACGGTAAGGACTTACCCTTGCACATAGAAGAGTAAACTGGGAAAACG
1 GTAACGGTAAGGACTTACCCTTGCACATAGCAGAGTAACCTGGGAAAACG
*
2698011 GTAACGGTAAGGACTTACCCTTGCACATAGCAGAGGAACCTGGGAAAACG
1 GTAACGGTAAGGACTTACCCTTGCACATAGCAGAGTAACCTGGGAAAACG
2698061 GTAACGGTAAGGACTTACCCTTGCACATAGCAGA-TGAACCTGGGAAAACG
1 GTAACGGTAAGGACTTACCCTTGCACATAGCAGAGT-AACCTGGGAAAACG
2698111 GTAA
1 GTAA
2698115 TGTCTTACAA
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 99 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.18
Consensus pattern (50 bp):
GTAACGGTAAGGACTTACCCTTGCACATAGCAGAGTAACCTGGGAAAACG
Found at i:2698226 original size:24 final size:24
Alignment explanation
Indices: 2698199--2698296 Score: 99
Period size: 24 Copynumber: 4.1 Consensus size: 24
2698189 AAACGGGGAT
* *
2698199 ATCATAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAATAGAATTCAG
* *
2698223 ATCA-AATATCAAAATAGAATCCAT
1 ATCAGAA-ATCAAAATAGAATTCAG
* * *
2698247 ATCAGAAATCATAATGGAATTTAG
1 ATCAGAAATCAAAATAGAATTCAG
* *
2698271 ATCAGAAATCAGAATAGAAATCAG
1 ATCAGAAATCAAAATAGAATTCAG
2698295 AT
1 AT
2698297 AAAACATTCA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.93
25 2 0.03
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAATAGAATTCAG
Found at i:2698273 original size:48 final size:48
Alignment explanation
Indices: 2698197--2698289 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
2698187 GTAAACGGGG
*
2698197 ATATCATAAATCAAAACAGAATTCAGATCA-AATATCAAAATAGAATCC
1 ATATCAGAAATCAAAACAGAATTCAGATCAGAA-ATCAAAATAGAATCC
* ** * *
2698245 ATATCAGAAATCATAATGGAATTTAGATCAGAAATCAGAATAGAA
1 ATATCAGAAATCAAAACAGAATTCAGATCAGAAATCAAAATAGAA
2698290 ATCAGATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 36 0.95
49 2 0.05
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGATCAGAAATCAAAATAGAATCC
Found at i:2700251 original size:14 final size:14
Alignment explanation
Indices: 2700220--2700257 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
2700210 CAAAGTCAAC
2700220 GAGTTGACTC-GAT
1 GAGTTGACTCAGAT
*
2700233 GAGTTGACTCAGCT
1 GAGTTGACTCAGAT
2700247 GAGTTGACTCA
1 GAGTTGACTCA
2700258 ATACGGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (14 bp):
GAGTTGACTCAGAT
Found at i:2700301 original size:13 final size:13
Alignment explanation
Indices: 2700263--2700313 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
2700253 ACTCAATACG
2700263 GGTCAAGCGGGTCA
1 GGTC-AGCGGGTCA
* *
2700277 GG-CAAGCAGGTCG
1 GGTC-AGCGGGTCA
*
2700290 GGTTAGCGGGTCA
1 GGTCAGCGGGTCA
2700303 GGTCAGCGGGT
1 GGTCAGCGGGT
2700314 TGGATTCGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 28 0.93
14 2 0.07
ACGTcount: A:0.18, C:0.20, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAGCGGGTCA
Found at i:2706010 original size:14 final size:14
Alignment explanation
Indices: 2705993--2706028 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2705983 CCATTATTAA
2705993 CAATAGGTAAAGGG
1 CAATAGGTAAAGGG
2706007 CAATAGGTAAAGGG
1 CAATAGGTAAAGGG
*
2706021 CAAAAGGT
1 CAATAGGT
2706029 GAATGCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.33, T:0.14
Consensus pattern (14 bp):
CAATAGGTAAAGGG
Found at i:2707059 original size:2 final size:2
Alignment explanation
Indices: 2707052--2707090 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2707042 GCCAATTGAA
2707052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2707091 ATAAATTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2710938 original size:18 final size:18
Alignment explanation
Indices: 2710912--2710965 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
2710902 GAGGGATTAT
*
2710912 TAGTTGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
2710930 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
* *
2710948 AAGTGGTCATTCGGGACA
1 TAGTGGTCCTTCGGGACA
2710966 AATTTTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (18 bp):
TAGTGGTCCTTCGGGACA
Found at i:2716982 original size:20 final size:20
Alignment explanation
Indices: 2716953--2717003 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2716943 GAGCTGAAAT
*
2716953 AAAGTAATTTTCGAGCGTAA
1 AAAGTGATTTTCGAGCGTAA
* * *
2716973 AAAGTGATTTTTGGGCTTAA
1 AAAGTGATTTTCGAGCGTAA
2716993 AAAGTGATTTT
1 AAAGTGATTTT
2717004 TGGGCTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (20 bp):
AAAGTGATTTTCGAGCGTAA
Found at i:2717004 original size:20 final size:20
Alignment explanation
Indices: 2716970--2717009 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2716960 TTTTCGAGCG
2716970 TAAAAAGTGATTTTTGGGCT
1 TAAAAAGTGATTTTTGGGCT
2716990 TAAAAAGTGATTTTTGGGCT
1 TAAAAAGTGATTTTTGGGCT
2717010 AGGGGTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (20 bp):
TAAAAAGTGATTTTTGGGCT
Found at i:2717204 original size:19 final size:19
Alignment explanation
Indices: 2717182--2717225 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
2717172 ATGGGTATCA
2717182 ATACCTAGGTATGGTACCG
1 ATACCTAGGTATGGTACCG
*
2717201 ATACCTATGTATGGTACCG
1 ATACCTAGGTATGGTACCG
2717220 ATACCT
1 ATACCT
2717226 CAGTTAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (19 bp):
ATACCTAGGTATGGTACCG
Found at i:2719033 original size:2 final size:2
Alignment explanation
Indices: 2719026--2719059 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2719016 TGAACATGGA
2719026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2719060 CACCGACTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2721297 original size:60 final size:60
Alignment explanation
Indices: 2721228--2721415 Score: 161
Period size: 60 Copynumber: 3.1 Consensus size: 60
2721218 TATATGTTCT
* * *
2721228 TAAAGTATGATCTTTATTTTAAATTGATCCTTAAATTTTTAAATATTTTAATTTCATTTC-
1 TAAACTATGA-CTTTATTTTAAATTGATCCTAAAATTTTTAAATATTTTAATTTCATTCCA
* * * * * *
2721288 TAAACTATGACTATCA-TTCAAAGTTAATCCTCAAACTTTTAAATATTTTAATTTTA-TCCA
1 TAAACTATGACT-TTATTTTAAA-TTGATCCTAAAATTTTTAAATATTTTAATTTCATTCCA
* * ** * *
2721348 AAAACTATGAAATTTATTTTAAATTGGCCCCAAAACTTTTTGAATATTTTAATTTCA-TCCA
1 TAAACTATG-ACTTTATTTTAAATTGATCCTAAAA-TTTTTAAATATTTTAATTTCATTCCA
2721409 -AAACTAT
1 TAAACTAT
2721416 ACATATATAC
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
59 9 0.09
60 64 0.63
61 29 0.28
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (60 bp):
TAAACTATGACTTTATTTTAAATTGATCCTAAAATTTTTAAATATTTTAATTTCATTCCA
Done.