Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 116 of 144
Found at i:27001771 original size:11 final size:11
Alignment explanation
Indices: 27001755--27001779 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27001745 AATGTTTCTC
27001755 AATAAATTAAA
1 AATAAATTAAA
27001766 AATAAATTAAA
1 AATAAATTAAA
27001777 AAT
1 AAT
27001780 TTATTTATAC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAATTAAA
Found at i:27005998 original size:99 final size:99
Alignment explanation
Indices: 27005827--27006017 Score: 382
Period size: 99 Copynumber: 1.9 Consensus size: 99
27005817 GTCTAATATT
27005827 ATACTCATATTTAGTAAACACTAAAAAATTAACATTATTAGAACCTCATGTGATGGCCTGATGGT
1 ATACTCATATTTAGTAAACACTAAAAAATTAACATTATTAGAACCTCATGTGATGGCCTGATGGT
27005892 CAAAGGTGTTAGCCACTTCAAATGTGATGGCCTG
66 CAAAGGTGTTAGCCACTTCAAATGTGATGGCCTG
27005926 ATACTCATATTTAGTAAACACTAAAAAATTAACATTATTAGAACCTCATGTGATGGCCTGATGGT
1 ATACTCATATTTAGTAAACACTAAAAAATTAACATTATTAGAACCTCATGTGATGGCCTGATGGT
27005991 CAAAGGTGTTAGCCACTTCAAATGTGA
66 CAAAGGTGTTAGCCACTTCAAATGTGA
27006018 CCTGGGTTTA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (99 bp):
ATACTCATATTTAGTAAACACTAAAAAATTAACATTATTAGAACCTCATGTGATGGCCTGATGGT
CAAAGGTGTTAGCCACTTCAAATGTGATGGCCTG
Found at i:27007249 original size:17 final size:17
Alignment explanation
Indices: 27007227--27007269 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
27007217 GTTTTGAATA
27007227 TAATTATTCTTGAA-ACC
1 TAATTATTCTTGAACA-C
*
27007244 TAATTATT-TTGAACAT
1 TAATTATTCTTGAACAC
27007260 TAATTATTCT
1 TAATTATTCT
27007270 CAAATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (17 bp):
TAATTATTCTTGAACAC
Found at i:27007282 original size:33 final size:31
Alignment explanation
Indices: 27007211--27007283 Score: 74
Period size: 33 Copynumber: 2.3 Consensus size: 31
27007201 AAAAAAACAC
* * **
27007211 ACAATTGTTTTGAATATAATTATTCTTGAAA
1 ACAATTATTTTGAACATAATTATTCTCAAAA
*
27007242 CCTAATTATTTTGAACATTAATTATTCTCAAATA
1 AC-AATTATTTTGAACA-TAATTATTCTCAAA-A
27007276 ACAATTAT
1 ACAATTAT
27007284 GCTGGATGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.03
32 12 0.36
33 18 0.55
34 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (31 bp):
ACAATTATTTTGAACATAATTATTCTCAAAA
Found at i:27024569 original size:28 final size:28
Alignment explanation
Indices: 27024537--27024610 Score: 148
Period size: 28 Copynumber: 2.6 Consensus size: 28
27024527 ATTTTTTGTC
27024537 TTGATTTAAGCCATTTTTTTAAGAAGAA
1 TTGATTTAAGCCATTTTTTTAAGAAGAA
27024565 TTGATTTAAGCCATTTTTTTAAGAAGAA
1 TTGATTTAAGCCATTTTTTTAAGAAGAA
27024593 TTGATTTAAGCCATTTTT
1 TTGATTTAAGCCATTTTT
27024611 AAATTAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (28 bp):
TTGATTTAAGCCATTTTTTTAAGAAGAA
Found at i:27032074 original size:30 final size:30
Alignment explanation
Indices: 27031990--27032074 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
27031980 GTAAGCTTGA
*** *
27031990 TATAATGTCAGCTTGTGTGAGCAAATTTGT
1 TATAATGTCAGCTTGTGTGAGCAACCCTGG
* *
27032020 TATAATGTTAGCTTGTATGAGCAACCCTGG
1 TATAATGTCAGCTTGTGTGAGCAACCCTGG
*
27032050 TATATTGTCAGCTTGTGTGAGCAAC
1 TATAATGTCAGCTTGTGTGAGCAAC
27032075 TTATTATCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (30 bp):
TATAATGTCAGCTTGTGTGAGCAACCCTGG
Found at i:27035306 original size:18 final size:20
Alignment explanation
Indices: 27035283--27035335 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
27035273 GCATAATATC
27035283 CAAATACAA-ACAATGTC-T
1 CAAATACAACACAATGTCTT
* *
27035301 CAAATACATCATAAATGTCTT
1 CAAATACAACA-CAATGTCTT
27035322 CAAATACAACACAA
1 CAAATACAACACAA
27035336 GTGCAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.29
19 1 0.04
20 8 0.29
21 11 0.39
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.23
Consensus pattern (20 bp):
CAAATACAACACAATGTCTT
Found at i:27040733 original size:21 final size:22
Alignment explanation
Indices: 27040709--27040749 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
27040699 AACTATATTT
27040709 TAATTAAATTT-ATTT-TTAACA
1 TAATT-AATTTGATTTATTAACA
27040730 TAATTAATTTGATTTATTAA
1 TAATTAATTTGATTTATTAA
27040750 TTTGAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATTAATTTGATTTATTAACA
Found at i:27044868 original size:21 final size:19
Alignment explanation
Indices: 27044823--27044879 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
27044813 AATTTAAAAG
27044823 AAAATTAAATTAAAAAATT
1 AAAATTAAATTAAAAAATT
* *
27044842 ACAAATGTAAATTTTAAAATTT
1 A-AAAT-TAAA-TTAAAAAATT
*
27044864 AAAATAAAATATAAAA
1 AAAATTAAAT-TAAAA
27044880 GATTCAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.07
20 11 0.37
21 8 0.27
22 9 0.30
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATTAAATTAAAAAATT
Found at i:27050801 original size:17 final size:17
Alignment explanation
Indices: 27050779--27050817 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
27050769 AGGTGGAGAA
* * *
27050779 CTTGTTTGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
27050796 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
27050813 CTTGT
1 CTTGT
27050818 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:27050893 original size:18 final size:18
Alignment explanation
Indices: 27050859--27050893 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27050849 AAATTCTTGT
* *
27050859 TAAAATAAAATACAGTAG
1 TAAAATAAAAAAAAGTAG
27050877 TAAAATAAAAAAAAGTA
1 TAAAATAAAAAAAAGTA
27050894 AAATCCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (18 bp):
TAAAATAAAAAAAAGTAG
Found at i:27051284 original size:36 final size:36
Alignment explanation
Indices: 27051243--27051312 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
27051233 AGGCAAAGAA
27051243 TGTTTTTTCTTCTCATAATATTTCTATGTAATTATC
1 TGTTTTTTCTTCTCATAATATTTCTATGTAATTATC
27051279 TGTTTTTTCTTCTCATAATATTTCTATGTAATTA
1 TGTTTTTTCTTCTCATAATATTTCTATGTAATTA
27051313 GATAATGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.59
Consensus pattern (36 bp):
TGTTTTTTCTTCTCATAATATTTCTATGTAATTATC
Found at i:27051558 original size:24 final size:24
Alignment explanation
Indices: 27051521--27051586 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
27051511 TAATAGATTA
27051521 TTATTATTATATATTATTAA-ATTAAT
1 TTATT-TTA-ATATTA-TAACATTAAT
*
27051547 TTATTTTAATATTA-AACTTTAAT
1 TTATTTTAATATTATAACATTAAT
*
27051570 TTTTTTATAATATTATA
1 TTATTT-TAATATTATA
27051587 TTTATTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 2 0.06
23 10 0.29
24 14 0.40
25 4 0.11
26 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTTAATATTATAACATTAAT
Found at i:27051590 original size:23 final size:23
Alignment explanation
Indices: 27051535--27051609 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
27051525 TATTATATAT
*
27051535 TATTAAA--TTAATTTATTTTAA
1 TATTAAACTTTAATTTTTTTTAA
27051556 TATTAAACTTTAATTTTTTTATAA
1 TATTAAACTTTAATTTTTTT-TAA
* *
27051580 TATTATA-TTT-ATTTTTCTTTTA
1 TATTAAACTTTAATTTTT-TTTAA
*
27051602 TTTTAAAC
1 TATTAAAC
27051610 AACGATGGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.16
22 13 0.30
23 15 0.34
24 9 0.20
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTAAACTTTAATTTTTTTTAA
Found at i:27063085 original size:41 final size:41
Alignment explanation
Indices: 27063006--27063086 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
27062996 AAAATTTATA
* * **
27063006 TTTAATACAATAAAATATTTTTTTTATATTTTTTTGTGTTT
1 TTTAATACAATAAAATATTTTATGTATATTTTAATGTGTTT
*
27063047 TTTAATATAATAAAATATTTTAATGTATA-TTTAATGTGTT
1 TTTAATACAATAAAATATTTT-ATGTATATTTTAATGTGTT
27063087 AGAAAACTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 29 0.85
42 5 0.15
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (41 bp):
TTTAATACAATAAAATATTTTATGTATATTTTAATGTGTTT
Found at i:27064805 original size:22 final size:22
Alignment explanation
Indices: 27064779--27064828 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
27064769 AAATTTAAAG
27064779 ATAAAATGTAAAATATATATTT
1 ATAAAATGTAAAATATATATTT
* * *
27064801 TTAAAATTTAAAATTTATATTT
1 ATAAAATGTAAAATATATATTT
27064823 ATAAAA
1 ATAAAA
27064829 AAAATCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAAAATGTAAAATATATATTT
Found at i:27069848 original size:8 final size:7
Alignment explanation
Indices: 27069830--27069865 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
27069820 ACTCATCACT
27069830 TTAAACC
1 TTAAACC
27069837 TTAAATCC
1 TTAAA-CC
27069845 TTAAGACC
1 TTAA-ACC
27069853 TTAAACC
1 TTAAACC
27069860 TTAAAC
1 TTAAAC
27069866 TAATCACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.52
8 12 0.44
9 1 0.04
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (7 bp):
TTAAACC
Found at i:27070372 original size:26 final size:26
Alignment explanation
Indices: 27070333--27070387 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
27070323 TGAGCGACAC
* *
27070333 TTTTGTTTCTTTTCCTTCTTCAAAAA
1 TTTTGCTTCCTTTCCTTCTTCAAAAA
27070359 TTTTGCTTCCTTTCCTTCTTCAAAAA
1 TTTTGCTTCCTTTCCTTCTTCAAAAA
27070385 TTT
1 TTT
27070388 GCAGTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTGCTTCCTTTCCTTCTTCAAAAA
Found at i:27071863 original size:22 final size:24
Alignment explanation
Indices: 27071819--27071865 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
27071809 ATAAAAACCA
* *
27071819 AATAATATTTCTAAAATTTTAAAT
1 AATAATATTTCTAAAAATATAAAT
27071843 AATAA-ATTT-TAAAAATATAAAT
1 AATAATATTTCTAAAAATATAAAT
27071865 A
1 A
27071866 TTATGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 4 0.19
24 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AATAATATTTCTAAAAATATAAAT
Found at i:27073760 original size:8 final size:8
Alignment explanation
Indices: 27073749--27073799 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
27073739 TATATATATT
27073749 TTTATAAA
1 TTTATAAA
27073757 TTTATAAA
1 TTTATAAA
*
27073765 GTTATAAA
1 TTTATAAA
*
27073773 TTT-TATA
1 TTTATAAA
27073780 TTTA-AATA
1 TTTATAA-A
27073788 TTTTATAAA
1 -TTTATAAA
27073797 TTT
1 TTT
27073800 TATATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.20
8 21 0.60
9 5 0.14
10 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (8 bp):
TTTATAAA
Found at i:27075362 original size:21 final size:21
Alignment explanation
Indices: 27075333--27075386 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
27075323 CAAGCAAGTC
*
27075333 TTTAATATTTGGTGCTATTTT
1 TTTATTATTTGGTGCTATTTT
* *
27075354 TTTATTATTTTGGTGTTGTTTT
1 TTTATTA-TTTGGTGCTATTTT
*
27075376 TATTGTTATTT
1 T-TTATTATTT
27075387 TTGTTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.22
22 16 0.59
23 5 0.19
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (21 bp):
TTTATTATTTGGTGCTATTTT
Found at i:27075368 original size:22 final size:21
Alignment explanation
Indices: 27075340--27075407 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
27075330 GTCTTTAATA
27075340 TTTGGTGCTATTTTTTTATTAT
1 TTTGGTGCTATTTTTTT-TTAT
* *
27075362 TTTGGTGTTGTTTTTATTGTTATT
1 TTTGGTGCTATTTTT-TT-TTA-T
* *
27075386 TTTGTTTCTATTTTTTTTTAT
1 TTTGGTGCTATTTTTTTTTAT
27075407 T
1 T
27075408 ACTGTTTTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.05
22 16 0.43
23 7 0.19
24 12 0.32
ACGTcount: A:0.10, C:0.03, G:0.13, T:0.74
Consensus pattern (21 bp):
TTTGGTGCTATTTTTTTTTAT
Found at i:27081658 original size:19 final size:19
Alignment explanation
Indices: 27081634--27081678 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
27081624 ATAAAAATTA
**
27081634 AAAAAAAGGGGTAATATAG
1 AAAAAAAGGAATAATATAG
**
27081653 AAAAAAATTAATAATATAG
1 AAAAAAAGGAATAATATAG
27081672 AAAAAAA
1 AAAAAAA
27081679 TTAACAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (19 bp):
AAAAAAAGGAATAATATAG
Found at i:27081679 original size:19 final size:19
Alignment explanation
Indices: 27081645--27081682 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27081635 AAAAAAGGGG
27081645 TAATATAGAAAAAAATTAA
1 TAATATAGAAAAAAATTAA
27081664 TAATATAGAAAAAAATTAA
1 TAATATAGAAAAAAATTAA
27081683 CAAACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
TAATATAGAAAAAAATTAA
Found at i:27084018 original size:68 final size:66
Alignment explanation
Indices: 27083901--27084030 Score: 181
Period size: 68 Copynumber: 1.9 Consensus size: 66
27083891 CTGAACAATA
** * *
27083901 TAATGATTTTGACTTTTAACTTAATGAGTAAATATTTATTAAAACGACGTAGTTTT-TTTTTAAC
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAGTTTTATTTTTAAC
27083965 T
66 T
*
27083966 TAATGATTTTGATTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACGACGTAGTTTTATTTTT
1 TAATGATTTTGACTTTTAAC-TT-AAAAA-GTAAACATTTATCAAAACGACGTAGTTTTATTTTT
27084031 TCTTATTCGG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 19 0.34
66 2 0.04
67 3 0.05
68 27 0.48
69 5 0.09
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (66 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAGTTTTATTTTTAAC
T
Found at i:27088304 original size:765 final size:764
Alignment explanation
Indices: 27086835--27088368 Score: 2853
Period size: 765 Copynumber: 2.0 Consensus size: 764
27086825 TTGGGTTCGT
*
27086835 ATGTAAGGTGCTTGCACGCTTCTATGAGACCGCATGATGTGGGTATTGGAAAAATCCCGGTTTGA
1 ATGTAAGGTGCTTGCACGCTTCTATGAGACCGCACGATGTGGGTATTGGAAAAATCCCGGTTTGA
27086900 AAACCGTTTTCTTGCACAACGGAAAATTAAAATTTTGAAAATCAATCCGATTTGTGATATTTATA
66 AAACCGTTTTCTTGCACAACGGAAAATTAAAATTTTGAAAATCAATCCGATTTGTGATATTTATA
27086965 ACAATAAATCCTAATCGAATTCATACCTCTATTTTCGGCTTAGTGGATTTTCATCGTTCCCGACT
131 ACAATAAATCCTAATCGAATTCATACCTCTATTTTCGGCTTAGTGGATTTTCATCGTTCCCGACT
27087030 TTCAACCAATGATCTTTTCTGCTATTCTCATACCATGAACTGTTTCGAGTGTGGGCTCGAACCAA
196 TTCAACCAATGATCTTTTCTGCTATTCTCATACCATGAACTGTTTCGAGTGTGGGCTCGAACCAA
27087095 TTGAATCGAAACACAAAATTAGAAAACTTTTAACAAAAATTCTCTTTTCTTTAAGGGAAACCAAT
261 TTGAATCGAAACACAAAATTAGAAAACTTTTAACAAAAATTCTCTTTTCTTTAAGGGAAACCAAT
*
27087160 AGAATTGTTATTCTGAAAAAATATATTTGATAGTTGAGAATAAATTCTCTCTATTTTTCGACCGA
326 AGAATTGTTATTCTGAAAAAATATATTTGATAGTTGAGAATAAATTCTCTCTATTTTTCAACCGA
*
27087225 ATAATAATCTCTCAAAATTGTATTAATAATTTTATCTGTCATCTATTTATATAAGAAAAAAAACA
391 ATAATAATCTCTCAAAATTGTATTAATAATTTTATCTGCCATCTATTTATATAAGAAAAAAAACA
* *
27087290 TACAATCCTTATTGAGTTGTAGTGATTTATTTCAAATAGAAAATATCCTACCTAGAATAGAATTA
456 TACAATCCTTATTGAGTTGTAATGATTTATTTCAAATAGAAAATATCCTACCTAAAATAGAATTA
27087355 AGGTGGGCGGCACACCTTAGTTCATCAAGAAATGACTAATAGAGGCTCGAGTTAAAGGAACAAGG
521 AGGTGGGCGGCACACCTTAGTTCATCAAGAAATGACTAATAGAGGCTCGAGTTAAAGGAACAAGG
*
27087420 CATTCATAGCACATCCCAATATACTTCATTGCTTACTCGACTTGTTTGAATTCTCCCCGAATCAT
586 CATACATAGCACATCCCAATATACTTCATTGCTTACTCGACTTGTTTGAATTCTCCCCGAATCAT
27087485 CCCTCGGAAGCTAAACATCGTTCCACAATGCCACCTCTCTGCCTGACCCAATCTGCCAATGAATA
651 CCCTCGGAAGCTAAACATCGTTCCACAATGCCACCTCTCTGCCTGACCCAATCTGCCAATGAATA
* *
27087550 CCCAACTCCAACAGCTCCTTTGCACTCAAAATCCTCCTCCATGTTAGTG
716 CCCAACTCCAACAGCCCCTTTGCACTCAAAATACTCCTCCATGTTAGTG
27087599 ATGTAAGGTGCTTGCACGCTTCTATGAGACCGCACGATGTGGGTATTGGAAAAATCCCGGTTTGA
1 ATGTAAGGTGCTTGCACGCTTCTATGAGACCGCACGATGTGGGTATTGGAAAAATCCCGGTTTGA
27087664 AAACCGTTTTCTTGCACAACGGAAAATTAAAATTTTGAAAATCAATCC-AGTTTGTGATATTTAT
66 AAACCGTTTTCTTGCACAACGGAAAATTAAAATTTTGAAAATCAATCCGA-TTTGTGATATTTAT
*
27087728 AATAATAAATCCTAATCGAATTCATACCTCTATTTTCGGCTTAGTGGATTTTCATCGTTCCCGAC
130 AACAATAAATCCTAATCGAATTCATACCTCTATTTTCGGCTTAGTGGATTTTCATCGTTCCCGAC
27087793 TTTCAACCAAATGATCTTTTCTGCTATTCTCATACCATGAACTGTTTCGAGTGTGGGCTCGAACC
195 TTTCAACC-AATGATCTTTTCTGCTATTCTCATACCATGAACTGTTTCGAGTGTGGGCTCGAACC
27087858 AATTGAATCGAAACACAAAATTAGAAAACTTTTAACAAAAAATTCTCTTTTCTTTAAGGGAAA-C
259 AATTGAATCGAAACACAAAATTAGAAAACTTTTAAC-AAAAATTCTCTTTTCTTTAAGGGAAACC
* *
27087922 AATAGAATTGTTATTCTGGAAAAATATATTTGATAGTTGAGAATAAATTCTCTGTATTTTTCAAC
323 AATAGAATTGTTATTCTGAAAAAATATATTTGATAGTTGAGAATAAATTCTCTCTATTTTTCAAC
* *
27087987 CGAATAATAATTTCTCAAAATTGTGTTAATAATTTTATCGATGCCATCTA-TT-TATAAGAAAAA
388 CGAATAATAATCTCTCAAAATTGTATTAATAATTTTATC--TGCCATCTATTTATATAAGAAAAA
*
27088050 AAACATACAATCTTTATTGAGTTGTAATGATTTATTTCAAATAGAAAATATCCTACCTAAAATAG
451 AAACATACAATCCTTATTGAGTTGTAATGATTTATTTCAAATAGAAAATATCCTACCTAAAATAG
27088115 AATTAAGGTGGGCGTGC-CACCTTAGTTCATCAAGAAATGACTAATAGAGGCTCGAGTTAAAGGA
516 AATTAAGGTGGGCG-GCACACCTTAGTTCATCAAGAAATGACTAATAGAGGCTCGAGTTAAAGGA
27088179 ACAAGGCATACATAGCACATCCCAATATACTTCATTGCTTACTCGACTTGTTTGAATTCTCCCCG
580 ACAAGGCATACATAGCACATCCCAATATACTTCATTGCTTACTCGACTTGTTTGAATTCTCCCCG
27088244 AATCATCCCTCGGAAGCTAAACATCGTTCCACAATGCCACCTCTCTGCCTGACCCAATCTGCCAA
645 AATCATCCCTCGGAAGCTAAACATCGTTCCACAATGCCACCTCTCTGCCTGACCCAATCTGCCAA
27088309 TGAATACCCAACTCCAACAGCCCCTTTGCACTCAAAATACTCCTCCATGTTAGTG
710 TGAATACCCAACTCCAACAGCCCCTTTGCACTCAAAATACTCCTCCATGTTAGTG
27088364 ATGTA
1 ATGTA
27088369 TAATAGCCTA
Statistics
Matches: 750, Mismatches: 14, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
763 1 0.00
764 198 0.26
765 513 0.68
766 30 0.04
767 8 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (764 bp):
ATGTAAGGTGCTTGCACGCTTCTATGAGACCGCACGATGTGGGTATTGGAAAAATCCCGGTTTGA
AAACCGTTTTCTTGCACAACGGAAAATTAAAATTTTGAAAATCAATCCGATTTGTGATATTTATA
ACAATAAATCCTAATCGAATTCATACCTCTATTTTCGGCTTAGTGGATTTTCATCGTTCCCGACT
TTCAACCAATGATCTTTTCTGCTATTCTCATACCATGAACTGTTTCGAGTGTGGGCTCGAACCAA
TTGAATCGAAACACAAAATTAGAAAACTTTTAACAAAAATTCTCTTTTCTTTAAGGGAAACCAAT
AGAATTGTTATTCTGAAAAAATATATTTGATAGTTGAGAATAAATTCTCTCTATTTTTCAACCGA
ATAATAATCTCTCAAAATTGTATTAATAATTTTATCTGCCATCTATTTATATAAGAAAAAAAACA
TACAATCCTTATTGAGTTGTAATGATTTATTTCAAATAGAAAATATCCTACCTAAAATAGAATTA
AGGTGGGCGGCACACCTTAGTTCATCAAGAAATGACTAATAGAGGCTCGAGTTAAAGGAACAAGG
CATACATAGCACATCCCAATATACTTCATTGCTTACTCGACTTGTTTGAATTCTCCCCGAATCAT
CCCTCGGAAGCTAAACATCGTTCCACAATGCCACCTCTCTGCCTGACCCAATCTGCCAATGAATA
CCCAACTCCAACAGCCCCTTTGCACTCAAAATACTCCTCCATGTTAGTG
Found at i:27097774 original size:31 final size:31
Alignment explanation
Indices: 27097705--27097774 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
27097695 TTACAAAAGG
* * * *
27097705 ATCACTAAACTATTTGAAAGTTTTTATTTAA
1 ATCACTGAACTACTAGAAAGTTGTTATTTAA
* *
27097736 GTTACTGAACTACTAGAAAGTTGTTATTTAA
1 ATCACTGAACTACTAGAAAGTTGTTATTTAA
27097767 ATCACTGA
1 ATCACTGA
27097775 GCTATTAAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (31 bp):
ATCACTGAACTACTAGAAAGTTGTTATTTAA
Found at i:27101557 original size:42 final size:42
Alignment explanation
Indices: 27101478--27101564 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
27101468 CACTAATCTT
* * * *
27101478 ACAACAAATTCTGGTGTTAGATTGTATCAACAGTCTTATTTG
1 ACAACAAATTCTGGTATTAGATTATATCAACACTCTTATTCG
* *
27101520 ACAACAAATTCTGGTATTAGATTATATCGATACTCTTATTCG
1 ACAACAAATTCTGGTATTAGATTATATCAACACTCTTATTCG
27101562 ACA
1 ACA
27101565 GTCGATTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (42 bp):
ACAACAAATTCTGGTATTAGATTATATCAACACTCTTATTCG
Found at i:27105701 original size:9 final size:9
Alignment explanation
Indices: 27105689--27105713 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27105679 AGCAGAAACG
27105689 CAGAGCACA
1 CAGAGCACA
27105698 CAGAGCACA
1 CAGAGCACA
27105707 CAGAGCA
1 CAGAGCA
27105714 TTCTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.32, G:0.24, T:0.00
Consensus pattern (9 bp):
CAGAGCACA
Found at i:27112559 original size:31 final size:31
Alignment explanation
Indices: 27112535--27112655 Score: 103
Period size: 31 Copynumber: 4.0 Consensus size: 31
27112525 TTGGTAATCG
27112535 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
* * *
27112566 AACTTGACACTTTTT-TTAAGTTGGTACTTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
* * *
27112596 AACTT-----TTTGGGATCC-AATTTGGTACTTG
1 AACTTGACACTTT---TTCCTAATTTGGTACCTA
*
27112624 AACTTGACTCTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
27112655 A
1 A
27112656 TCTTTTTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.04
28 17 0.24
30 20 0.29
31 27 0.39
33 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (31 bp):
AACTTGACACTTTTTCCTAATTTGGTACCTA
Found at i:27112592 original size:30 final size:31
Alignment explanation
Indices: 27112535--27112600 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
27112525 TTGGTAATCG
*
27112535 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAAGTTGGTACCTA
* *
27112566 AACTTGACACTTTTT-TTAAGTTGGTACTTA
1 AACTTGACACTTTTTCCTAAGTTGGTACCTA
27112596 AACTT
1 AACTT
27112601 TTTGGGATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (31 bp):
AACTTGACACTTTTTCCTAAGTTGGTACCTA
Found at i:27112616 original size:89 final size:90
Alignment explanation
Indices: 27112464--27112655 Score: 271
Period size: 89 Copynumber: 2.1 Consensus size: 90
27112454 TTAATATAAC
* * * * * *
27112464 ATTTGGTACTTGAATTTGACAGTTTTTCTTAATTTGATACTTAAACTTTTTTTGGTCCAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTTGGGTCCAATTTGG
27112529 TAATCGAACTTGACACTTTTTCCTA
66 TAATCGAACTTGACACTTTTTCCTA
*
27112554 ATTTGGTACCTAAACTTGACACTTTTT-TTAAGTTGGTACTTAAAC-TTTTTGGGATCCAATTTG
1 ATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTTGGG-TCCAATTTG
* * *
27112617 GTACTTGAACTTGACTCTTTTTCCTA
65 GTAATCGAACTTGACACTTTTTCCTA
27112643 ATTTGGTACCTAA
1 ATTTGGTACCTAA
27112656 TCTTTTTTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
88 7 0.08
89 61 0.67
90 23 0.25
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTTGGGTCCAATTTGG
TAATCGAACTTGACACTTTTTCCTA
Found at i:27112982 original size:60 final size:59
Alignment explanation
Indices: 27112871--27112983 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
27112861 AATTGGGTCC
* * *
27112871 AAAAAAAATTTAGATACAAAATTAGGAAAAAGTGTCAAATCCAGATGCCAAATTAGGTA
1 AAAAAAAATTTAAATACAAAATTAGGAAAAAGTGTCAAATCAAGATACCAAATTAGGTA
* *
27112930 AAAAATAAATTTAAATACCAAATTA-GAAAAATGTGTGAAATTCAAG-TACCAAAT
1 AAAAA-AAATTTAAATACAAAATTAGGAAAAA-GTGTCAAA-TCAAGATACCAAAT
27112984 GTTATATTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 11 0.24
60 31 0.67
61 4 0.09
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (59 bp):
AAAAAAAATTTAAATACAAAATTAGGAAAAAGTGTCAAATCAAGATACCAAATTAGGTA
Found at i:27113073 original size:30 final size:30
Alignment explanation
Indices: 27113037--27113128 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 30
27113027 AATCTTTAGG
*
27113037 AATTAATAGGAATATTTTAGGTAGTACAAA
1 AATTAATAGGAATATTTTAGGTAATACAAA
* * * *
27113067 AATTAATAGGGACAATTTAGGTAATATAAA
1 AATTAATAGGAATATTTTAGGTAATACAAA
* * * *
27113097 AATTGATAGGATTATTTTAAGTAATATAAA
1 AATTAATAGGAATATTTTAGGTAATACAAA
27113127 AA
1 AA
27113129 AACAATAGGA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.34
Consensus pattern (30 bp):
AATTAATAGGAATATTTTAGGTAATACAAA
Found at i:27113713 original size:19 final size:19
Alignment explanation
Indices: 27113686--27113742 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
27113676 AAAATTGAGG
*
27113686 GAAAAAAGAAAGAAAAAAA
1 GAAAGAAGAAAGAAAAAAA
* *
27113705 GAAAGAAGAAAGAAGGAGAA
1 GAAAGAAGAAAGAA-AAAAA
*
27113725 G-AAGGAGAAAGAAAAAAA
1 GAAAGAAGAAAGAAAAAAA
27113743 ATGTAATGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 3 0.10
19 24 0.77
20 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
GAAAGAAGAAAGAAAAAAA
Found at i:27114149 original size:94 final size:91
Alignment explanation
Indices: 27114082--27114399 Score: 482
Period size: 94 Copynumber: 3.5 Consensus size: 91
27114072 ACTTTAATTT
*
27114082 AATTTTGCTAGTTAGTAATTTT-TTTTATTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
1 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
27114146 TATTGATTTAAAATTTAATAATGTTTA
66 TATTGATTTAAAATTTAATAA-GTTTA
* **
27114173 AATTTTACTAGTTAGTAATTTTA-TTTGTTGTTAGTAGTAGTAGTAAGTAAAAAACGTTGTTCAT
1 AATTTTGCTAGTTAGTAATTTTATTTTGTTG-T--TAGTAGTAGTAAGTAAAAAATATTGTTCAT
27114237 ATTTATTGATTTAAAATTTAATAATGTTTA
63 ATTTATTGATTTAAAATTTAATAA-GTTTA
***
27114267 AAAAAT--TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
1 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
*
27114330 TATTGATTTAAAATTTAATAATGTTCA
66 TATTGATTTAAAATTTAATAA-GTTTA
27114357 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTA
1 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTA
27114400 GTAGTAAGTT
Statistics
Matches: 207, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
90 60 0.29
91 27 0.13
92 52 0.25
93 7 0.03
94 61 0.29
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (91 bp):
AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATT
TATTGATTTAAAATTTAATAAGTTTA
Found at i:27114338 original size:90 final size:90
Alignment explanation
Indices: 27114090--27114399 Score: 471
Period size: 90 Copynumber: 3.4 Consensus size: 90
27114080 TTAATTTTGC
*
27114090 TAGTTAGTAATTTT-TTTTATTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGATT
1 TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGATT
*
27114154 TAAAATTTAATAATGTTTAAATTTTAC
66 TAAAATTTAATAATGTTTAAA--TTAT
**
27114181 TAGTTAGTAATTTTA-TTTGTTGTTAGTAGTAGTAGTAAGTAAAAAACGTTGTTCATATTTATTG
1 TAGTTAGTAATTTTATTTTGTTG-T--TAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTG
**
27114245 ATTTAAAATTTAATAATGTTTAAAAAAT
63 ATTTAAAATTTAATAATGTTTAAATTAT
27114273 TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGATT
1 TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGATT
* *
27114338 TAAAATTTAATAATGTTCAAATTTT
66 TAAAATTTAATAATGTTTAAATTAT
27114363 GCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTA
1 --TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTA
27114400 GTAGTAAGTT
Statistics
Matches: 200, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
90 60 0.30
91 20 0.10
92 53 0.26
93 7 0.04
94 60 0.30
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (90 bp):
TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGATT
TAAAATTTAATAATGTTTAAATTAT
Found at i:27115404 original size:43 final size:43
Alignment explanation
Indices: 27115322--27115406 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
27115312 ATTAACATGT
* * * *
27115322 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAACTATATTACTTGACTCGTATTAATATGCTTACATGTTAC
* *
27115365 TAAACTATATTACTTTACTCTTATTAATAT-CTTAACATGTTA
1 TAAACTATATTACTTGACTCGTATTAATATGCTT-ACATGTTA
27115407 TTAATTGTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (43 bp):
TAAACTATATTACTTGACTCGTATTAATATGCTTACATGTTAC
Found at i:27116273 original size:21 final size:21
Alignment explanation
Indices: 27116248--27116322 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
27116238 TTTCATAACA
27116248 TTAAACCTTAAAACTTAAACC
1 TTAAACCTTAAAACTTAAACC
**
27116269 TTAAA-CTCGAAACTTAAAACC
1 TTAAACCTTAAAACTT-AAACC
* * * * *
27116290 ATAAATCATAAACCCTAAA-C
1 TTAAACCTTAAAACTTAAACC
27116310 TTCAAACCTTAAA
1 TT-AAACCTTAAA
27116323 TCATATACAT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 10 0.25
21 25 0.62
22 5 0.12
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.25
Consensus pattern (21 bp):
TTAAACCTTAAAACTTAAACC
Found at i:27116294 original size:28 final size:28
Alignment explanation
Indices: 27116254--27116327 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
27116244 AACATTAAAC
* *
27116254 CTTAAAA-CTTAAACCTTAAACTCGAAA
1 CTTAAAACCTTAAACCATAAACCCGAAA
* * *
27116281 CTTAAAACCATAAATCATAAACCCTAAA
1 CTTAAAACCTTAAACCATAAACCCGAAA
* *
27116309 CTTCAAACCTTAAATCATA
1 CTTAAAACCTTAAACCATA
27116328 TACATGAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (28 bp):
CTTAAAACCTTAAACCATAAACCCGAAA
Found at i:27116337 original size:28 final size:29
Alignment explanation
Indices: 27116277--27116337 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
27116267 CCTTAAACTC
*
27116277 GAAACTTAAAACCATAAATCATAAACCCT
1 GAAACTTAAAACCATAAATCATAAACCAT
* * *
27116306 -AAACTTCAAACCTTAAATCATATA-CAT
1 GAAACTTAAAACCATAAATCATAAACCAT
27116333 GAAAC
1 GAAAC
27116338 ATTTTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (29 bp):
GAAACTTAAAACCATAAATCATAAACCAT
Found at i:27119368 original size:17 final size:15
Alignment explanation
Indices: 27119333--27119373 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
27119323 AACACATTAC
27119333 CTTTCTTTCCTTATT
1 CTTTCTTTCCTTATT
*
27119348 CTTTCTTTCCTCTCCTT
1 CTTTCTTTCCT-T-ATT
27119365 CTTTCTTTC
1 CTTTCTTTC
27119374 TTTCCCGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (15 bp):
CTTTCTTTCCTTATT
Found at i:27133769 original size:27 final size:28
Alignment explanation
Indices: 27133739--27133821 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 28
27133729 ACTTTTTTAT
27133739 TAAAATTATAAAT-ATAATTAAAATATA
1 TAAAATTATAAATCATAATTAAAATATA
** * *
27133766 TAAAATTATCCATCCAAATATTATAATA-A
1 TAAAATTATAAAT-CATA-ATTAAAATATA
* *
27133795 TAAAATTTTAAATAATAATTAAAATAT
1 TAAAATTATAAATCATAATTAAAATAT
27133822 CTTGAATATA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
27 19 0.45
28 2 0.05
29 13 0.31
30 8 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAAATTATAAATCATAATTAAAATATA
Found at i:27142258 original size:29 final size:31
Alignment explanation
Indices: 27142212--27142273 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
27142202 TTAATTTAAT
* * * *
27142212 GTATAATTGTATATATGAACTT-TAATT-TG
1 GTATAATTATACACATGAAATTCTAATTGTG
27142241 GTATAATTATACACATGAAATTCTAATTGTG
1 GTATAATTATACACATGAAATTCTAATTGTG
27142272 GT
1 GT
27142274 TCAAATGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 18 0.67
30 5 0.19
31 4 0.15
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (31 bp):
GTATAATTATACACATGAAATTCTAATTGTG
Found at i:27146591 original size:27 final size:28
Alignment explanation
Indices: 27146561--27146643 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 28
27146551 ACTTTTTTAT
27146561 TAAAATTATAAAT-ATAATTAAAATATA
1 TAAAATTATAAATCATAATTAAAATATA
** * *
27146588 TAAAATTATCCATCCAAATATTATAATA-A
1 TAAAATTATAAAT-CATA-ATTAAAATATA
* *
27146617 TAAAATTTTAAATAATAATTAAAATAT
1 TAAAATTATAAATCATAATTAAAATAT
27146644 CTTGAATATA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
27 19 0.45
28 2 0.05
29 13 0.31
30 8 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAAATTATAAATCATAATTAAAATATA
Found at i:27152571 original size:138 final size:138
Alignment explanation
Indices: 27152331--27152595 Score: 343
Period size: 138 Copynumber: 1.9 Consensus size: 138
27152321 ATTTCTTGTG
* * *
27152331 AGATTTCTAATTATACGTCTCATTCACATACAAATGATACGTCATTTATGAAACTGTCACTCAAT
1 AGATTTCTAATTACACGTCTCATTCACATACAAATGATACGTCACTTATGAAACTGGCACTCAAT
* * * * * *
27152396 GAGAGCCGAAGCTAGATGTTTTTCCTATTTCCCTCAATGCAGAGCCATGTACATTAAAACTAATT
66 GAGAGCCGAAGCCAGATGTTTCTCCTATTTCCCTCAATGAAAAGCCAGGTACATCAAAACTAATT
27152461 TTCTGTTA
131 TTCTGTTA
* * * * *
27152469 AGATTTTTTATTACACGTTTCATTCACACT-CAAATGATATGTCACTTATGAAACTGGCACTCAG
1 AGATTTCTAATTACACGTCTCATTCACA-TACAAATGATACGTCACTTATGAAACTGGCACTCAA
* * * * *
27152533 TGAGAGTCGAAGCCAGATGTTTCTCCTGTTTTCTTCAATGAAAAGCTAGGTACATCAAAACTA
65 TGAGAGCCGAAGCCAGATGTTTCTCCTATTTCCCTCAATGAAAAGCCAGGTACATCAAAACTA
27152596 GTCTCTTGTT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
138 106 0.99
139 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (138 bp):
AGATTTCTAATTACACGTCTCATTCACATACAAATGATACGTCACTTATGAAACTGGCACTCAAT
GAGAGCCGAAGCCAGATGTTTCTCCTATTTCCCTCAATGAAAAGCCAGGTACATCAAAACTAATT
TTCTGTTA
Found at i:27153804 original size:48 final size:48
Alignment explanation
Indices: 27153713--27153804 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
27153703 GGAACCGTTG
* * *
27153713 CTCAGTGAAAGTTGAAATCAGAGCCATGCGCCACCTATGAAACCGTCA
1 CTCAGTGAAAGTCGAAATCAGAGCCACGCGCCACCTATAAAACCGTCA
* * **
27153761 CTCAGTGAACGTCGAAATCAGAGCCACGCGTCATTTATAAAACC
1 CTCAGTGAAAGTCGAAATCAGAGCCACGCGCCACCTATAAAACC
27153805 ATGATTCAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (48 bp):
CTCAGTGAAAGTCGAAATCAGAGCCACGCGCCACCTATAAAACCGTCA
Found at i:27153814 original size:48 final size:48
Alignment explanation
Indices: 27153713--27153816 Score: 118
Period size: 48 Copynumber: 2.2 Consensus size: 48
27153703 GGAACCGTTG
* * * *
27153713 CTCAGTGAAAGTTGAAATCAGAGCCATGCGCCACCTATGAAACCGTCA
1 CTCAGTGAAAGTCGAAATCAGAGCCACGCGCCACCTATAAAACCATCA
* * ** *
27153761 CTCAGTGAACGTCGAAATCAGAGCCACGCGTCATTTATAAAACCATGA
1 CTCAGTGAAAGTCGAAATCAGAGCCACGCGCCACCTATAAAACCATCA
*
27153809 TTCAGTGA
1 CTCAGTGA
27153817 GAATCAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (48 bp):
CTCAGTGAAAGTCGAAATCAGAGCCACGCGCCACCTATAAAACCATCA
Found at i:27155138 original size:138 final size:138
Alignment explanation
Indices: 27154885--27155140 Score: 320
Period size: 138 Copynumber: 1.9 Consensus size: 138
27154875 GAGATTTCTA
* ** *
27154885 ATTACACGTTTCATTCATATACAAATGATACGTCACTTATGAAACTGTCACTCAATGAGAGCTGA
1 ATTACACGTTTCATTCACATACAAATGATACGTCACTTATGAAACTAACACTCAATGAAAGCTGA
* * * *
27154950 AGCTAGATGTTTCTCTTGTTTCCCTCAATGTAGAGCCAGGTTCATTAAAACTAATCTTCTGTTGA
66 AGCTAGATGTTTCTCCTGTTTCCCTCAATGAAGAGCCAGGTACATCAAAACTAATCTTCTGTTGA
27155015 AATTTTTT
131 AATTTTTT
* * * *
27155023 ATTACACGTTTCGTTCACACT-CAAATGATATGTCACTTATGAAACTAACACTCAGTTAAAG-TC
1 ATTACACGTTTCATTCACA-TACAAATGATACGTCACTTATGAAACTAACACTCAATGAAAGCT-
* * * *
27155086 GAAG-TCAGATGTTTCTCCTGTTTTCTTCAGTGAAGAGCTAGGTACATCAAAACTA
64 GAAGCT-AGATGTTTCTCCTGTTTCCCTCAATGAAGAGCCAGGTACATCAAAACTA
27155141 GTCTCTTGTT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
137 2 0.02
138 96 0.97
139 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (138 bp):
ATTACACGTTTCATTCACATACAAATGATACGTCACTTATGAAACTAACACTCAATGAAAGCTGA
AGCTAGATGTTTCTCCTGTTTCCCTCAATGAAGAGCCAGGTACATCAAAACTAATCTTCTGTTGA
AATTTTTT
Found at i:27155638 original size:46 final size:46
Alignment explanation
Indices: 27155585--27155705 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
27155575 AATAATACCT
* * * *
27155585 CACTTATGAAACCGTCACTCAATGAGAGTCGAAGCCATAGCCACAC
1 CACTTATGAAACTGTCACTCAGTGAGAGTCGAAACCAAAGCCACAC
* * **
27155631 CACTTATGAAACTGTCACTCAGTGAGAGTCGAAATCAAAGTCACGT
1 CACTTATGAAACTGTCACTCAGTGAGAGTCGAAACCAAAGCCACAC
*
27155677 CACTTATGAAATTGTCACTCAGTGAGAGT
1 CACTTATGAAACTGTCACTCAGTGAGAGT
27155706 TAAAGCCAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (46 bp):
CACTTATGAAACTGTCACTCAGTGAGAGTCGAAACCAAAGCCACAC
Found at i:27158605 original size:213 final size:213
Alignment explanation
Indices: 27157975--27158606 Score: 881
Period size: 214 Copynumber: 3.0 Consensus size: 213
27157965 TAATGCTCAT
* * * *
27157975 TGCAATGCAATTCTGAATGAAGATTTTTATTGAGATTTCATATTACACATTGAATTCACACCTAA
1 TGCAATGCAATTATGAATGAAGATTTTCACTGAGATTTCACATTACACATTGAATTCACACCTAA
** *
27158040 TTGATATATCATGTATGAAACCGTCACTCTGTGAAAATCGAAGCCAGATTCTCAAAACCACACGT
66 TTGATACGTCATGTATGAAA-CGTCGCTCTGTGAAAATCGAAGCCAGATTCTCAAAACCACACGT
* * * * *
27158105 CACCTATGAAACAACCATTCAATGAAAATAGAAGCCAAATCCACATCACTTATGCAACCGTCATT
130 CACCTATGAAACAATCATTCAATGAGAATCGAAGCCAAATCCACGTCACTTATGCAACTGTCATT
* *
27158170 CATTGAGAATAACGCTTGG
195 CAATGAGAATAACGCTCGG
* *
27158189 TGCAATGTAATTATGAATGAAGATTTTCACTGGGATTTCACATTACACATTGAATTCACACCTAA
1 TGCAATGCAATTATGAATGAAGATTTTCACTGAGATTTCACATTACACATTGAATTCACACCTAA
* * * *
27158254 TTGATACGTCACGTATGAAACTGTCGCTCTGTGAAAATCAAAGCCAGATTCCCAAAACCATACGT
66 TTGATACGTCATGTATGAAAC-GTCGCTCTGTGAAAATCGAAGCCAGATTCTCAAAACCACACGT
* * * * *
27158319 CACCTATGAAACAATCATTCAATAAGAATCGAAGCCAAATCCACGTTACATATGTAACTGCCATT
130 CACCTATGAAACAATCATTCAATGAGAATCGAAGCCAAATCCACGTCACTTATGCAACTGTCATT
27158384 CAATGAGAATAACGCTCGG
195 CAATGAGAATAACGCTCGG
*
27158403 TGCAATGCAATTATGAATGAAGATTTTCACTAAGATTTCACATTACACATTGAATTCACACCT-A
1 TGCAATGCAATTATGAATGAAGATTTTCACTGAGATTTCACATTACACATTGAATTCACACCTAA
* * * * * *
27158467 TTGAAACGTCATGTATGAAATCGTCGCTTTGTGAAAATCGAAGCCAGATTGTTAGAACCACGCGT
66 TTGATACGTCATGTATGAAA-CGTCGCTCTGTGAAAATCGAAGCCAGATTCTCAAAACCACACGT
** * * *
27158532 CACCTATGAAACCGTCATTCAATGAGAATCGAAGCTAAAGT-CATGTCACTTGTGCAACTGTCAT
130 CACCTATGAAACAATCATTCAATGAGAATCGAAGCCAAA-TCCACGTCACTTATGCAACTGTCAT
27158596 TCAATGAGAAT
194 TCAATGAGAAT
27158607 CGAAGCTGAA
Statistics
Matches: 367, Mismatches: 48, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
213 118 0.32
214 249 0.68
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (213 bp):
TGCAATGCAATTATGAATGAAGATTTTCACTGAGATTTCACATTACACATTGAATTCACACCTAA
TTGATACGTCATGTATGAAACGTCGCTCTGTGAAAATCGAAGCCAGATTCTCAAAACCACACGTC
ACCTATGAAACAATCATTCAATGAGAATCGAAGCCAAATCCACGTCACTTATGCAACTGTCATTC
AATGAGAATAACGCTCGG
Found at i:27158940 original size:205 final size:205
Alignment explanation
Indices: 27158622--27159687 Score: 1457
Period size: 205 Copynumber: 5.2 Consensus size: 205
27158612 CTGAAACTAG
* * * * * *
27158622 GTACATTGAAACTAGTGTCCTCTTTCTCTTTGATATTGAACAAAAATAATAATTTTGAAATTTGA
1 GTACATCGAAACTAGTCTCCTATTTCCCTCTGATATTGAACAAAAA-CATAATTTTGAAATTTGA
* * * *
27158687 ATTACAATATAATAATGCTTGGTGCAGTATAATTAATGAATGGAGATTCTCATTGAAAATTTTAA
65 ATTACAATATAATAATGCTTGGTGCAATGTAATTAATGAATGGAGATTCTCAATGAAAATTTTGA
* * * * *
27158752 TTACACATTCCATTCACATACAAATGATATATCATTTATGAAACTGTCACTCAGTGAAAGTCGAA
130 TTACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAA
* *
27158817 ACCAGAGCCAG
195 GCCAGAGCCAA
* *
27158828 GTACATCGAAACTAGTCTCTTATTTCCCTCCGATATTGAACAAAAACATAATTTTGAAATTTGAA
1 GTACATCGAAACTAGTCTCCTATTTCCCTCTGATATTGAACAAAAACATAATTTTGAAATTTGAA
* *
27158893 TTACAATATAATAATGCTTGGTACAATGTAATTAATGAATGGAGATTCTCAGTGAAAATTTTGAT
66 TTACAATATAATAATGCTTGGTGCAATGTAATTAATGAATGGAGATTCTCAATGAAAATTTTGAT
*
27158958 TACACATTTCATTCACACGCAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAAG
131 TACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAAG
* *
27159023 CTAGAGCTAA
196 CCAGAGCCAA
* *
27159033 GTACATCGAAACTAGTCTCCTATTTCCCTCCGATATTGAACAAAAACATAATTTTAAAATTTGAA
1 GTACATCGAAACTAGTCTCCTATTTCCCTCTGATATTGAACAAAAACATAATTTTGAAATTTGAA
* * * *
27159098 TAACAATATAATAATGCTTGGTACAGA-GTAATTAATAAATGGAGATTCCCAATGAAAATTTTGA
66 TTACAATATAATAATGCTTGGTGCA-ATGTAATTAATGAATGGAGATTCTCAATGAAAATTTTGA
*
27159162 TTACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTTGAA
130 TTACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAA
* *
27159227 GCTAGAGTCAA
195 GCCAGAGCCAA
* *
27159238 GTACATCGAAACTAGTCTCCTATTTCTCTCTGATATTGAACAAAAACATAAATTTGAAATTTGAA
1 GTACATCGAAACTAGTCTCCTATTTCCCTCTGATATTGAACAAAAACATAATTTTGAAATTTGAA
* * *
27159303 TTACAATATAATAATGTTTGGTGCAGTGTAATTAATGAAT-GAGATTCTCAATAAAAATTTTGAT
66 TTACAATATAATAATGCTTGGTGCAATGTAATTAATGAATGGAGATTCTCAATGAAAATTTTGAT
* * * * * *
27159367 TACACGTTTCATTTACACACAAATGATACCTCACTTATGAAATTGTCACTTAGTGAGGGTCGAAG
131 TACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAAG
* *
27159432 TCAGAGCCAG
196 CCAGAGCCAA
* * * * * * *
27159442 GTACATTGAAACGAGCCTCCTATTTCCCTCTTATATTGAGCAAAAA-A-AAATTTGAAATTTAAA
1 GTACATCGAAACTAGTCTCCTATTTCCCTCTGATATTGAACAAAAACATAATTTTGAAATTTGAA
* **
27159505 TTACAATATAATAATGCTTGGTGC-ATCGTAATTAATGAATGGATATTC-CTTGTGAAAATTTTG
66 TTACAATATAATAATGCTTGGTGCAAT-GTAATTAATGAATGGAGATTCTC-AATGAAAATTTTG
* * *
27159568 ATTACACA-TTCGTTCACACACAAATGATATATCACTTATGAAACTGTCACTCAATGAGAGTCGA
129 ATTACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCG-
*
27159632 AAG-CAGAGTCAA
193 AAGCCAGAGCCAA
* *
27159644 GTACATCAAAACTAATCTCCTATTTCCCTCAT-ATATTGAACAAA
1 GTACATCGAAACTAGTCTCCTATTTCCCTC-TGATATTGAACAAA
27159688 GACCAAAGTT
Statistics
Matches: 768, Mismatches: 85, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
201 1 0.00
202 142 0.18
203 28 0.04
204 126 0.16
205 431 0.56
206 40 0.05
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (205 bp):
GTACATCGAAACTAGTCTCCTATTTCCCTCTGATATTGAACAAAAACATAATTTTGAAATTTGAA
TTACAATATAATAATGCTTGGTGCAATGTAATTAATGAATGGAGATTCTCAATGAAAATTTTGAT
TACACATTTCATTCACACACAAATGATACATCACTTATGAAACTGTCACTCAGTGAGAGTCGAAG
CCAGAGCCAA
Found at i:27166881 original size:149 final size:147
Alignment explanation
Indices: 27166631--27166999 Score: 499
Period size: 148 Copynumber: 2.5 Consensus size: 147
27166621 TTTCATTTGA
* *
27166631 TTAAACAAAAATCACTATTTCACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCA
1 TTAAA-AAAAATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTTAAAAAAATCA
* * *
27166696 AAACTTTGTTAAAAATTTAAAATTTTTCTTTAAAATAACT-AAAAATATATTTTTATTTTTTTGA
65 AAACTTTGTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACAGATTTTTA--TTTTTAA
* *
27166760 AAATCTAAACTTTTTCATTTT
128 AAATATAAACTTTCTC-TTTT
* * *
27166781 TT-AAGAAAATCATTATTTTACTTAAAAATTCAAATTTTTATTTCGAAATAGTTAGAAAAAATCA
1 TTAAAAAAAATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTTA-AAAAAATCA
*
27166845 AAACTTTGTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAA
65 AAACTTTGTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAA
27166910 ATATAAACTTTCTCTTTT
130 ATATAAACTTTCTCTTTT
* * * *
27166928 TTAAAAAAAACCACTATTTTGCTTAAAAAAATCAAAGCTTTTATTTCGAAATTATTTTAAAAAAA
1 TTAAAAAAAATCACTATTTTACTT-AAAAATTCAAA-CTTTTATTTCGAAA-TA-GTTAAAAAAA
*
27166993 CCAAAAC
62 TCAAAAC
27167000 ATTTCCCAAA
Statistics
Matches: 193, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
147 6 0.03
148 82 0.42
149 60 0.31
150 28 0.15
151 14 0.07
152 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (147 bp):
TTAAAAAAAATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTTAAAAAAATCAA
AACTTTGTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAA
TATAAACTTTCTCTTTT
Found at i:27169433 original size:6 final size:6
Alignment explanation
Indices: 27169422--27169454 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
27169412 TGATCAAAAT
*
27169422 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
27169455 TATGAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:27180869 original size:58 final size:58
Alignment explanation
Indices: 27180805--27180923 Score: 159
Period size: 58 Copynumber: 2.1 Consensus size: 58
27180795 AAAAGAGTTA
*
27180805 TTTATGAGTATTATTTAGGAATAAAATTA-TATTTGAGTTTAAAAATATTTGAGTTTAG
1 TTTATGAGTATTATTTAAGAATAAAATTATTATTTG-GTTTAAAAATATTTGAGTTTAG
* * * * * *
27180863 TTTATGAGTGTTTTTTAATAATGAAATTATTTTTTGGTTTAAAAATATTTGGGTTTAG
1 TTTATGAGTATTATTTAAGAATAAAATTATTATTTGGTTTAAAAATATTTGAGTTTAG
27180921 TTT
1 TTT
27180924 GTTGATGGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
58 48 0.91
59 5 0.09
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (58 bp):
TTTATGAGTATTATTTAAGAATAAAATTATTATTTGGTTTAAAAATATTTGAGTTTAG
Found at i:27181019 original size:13 final size:13
Alignment explanation
Indices: 27181001--27181026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27180991 TGAGTATAGT
27181001 ATATTGGGTTTGG
1 ATATTGGGTTTGG
27181014 ATATTGGGTTTGG
1 ATATTGGGTTTGG
27181027 GTAATATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
ATATTGGGTTTGG
Found at i:27181185 original size:23 final size:23
Alignment explanation
Indices: 27181142--27181186 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
27181132 AAAAAAATTC
**
27181142 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
27181165 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
27181187 ATTCGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:27182263 original size:28 final size:28
Alignment explanation
Indices: 27182223--27182308 Score: 145
Period size: 28 Copynumber: 3.1 Consensus size: 28
27182213 CATTTCGCAG
27182223 TTAGGAAAATTTTGAAAATAATTACGGA
1 TTAGGAAAATTTTGAAAATAATTACGGA
* *
27182251 TTAGGAAAATTTTAAAAATAATTACGGC
1 TTAGGAAAATTTTGAAAATAATTACGGA
*
27182279 TTAGGAAAATTTTGAAATTAATTACGGA
1 TTAGGAAAATTTTGAAAATAATTACGGA
27182307 TT
1 TT
27182309 CAATTTATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (28 bp):
TTAGGAAAATTTTGAAAATAATTACGGA
Found at i:27183447 original size:6 final size:6
Alignment explanation
Indices: 27183436--27183502 Score: 68
Period size: 6 Copynumber: 11.2 Consensus size: 6
27183426 AGTTAAATTG
*
27183436 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAG ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
*
27183484 CTTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
27183503 ATAAAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 37 0.73
7 2 0.04
8 5 0.10
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:27183460 original size:17 final size:16
Alignment explanation
Indices: 27183428--27183500 Score: 78
Period size: 17 Copynumber: 4.6 Consensus size: 16
27183418 TAATTTGGAG
* *
27183428 TTAAATTGATTTAAAT
1 TTAAATTTACTTAAAT
27183444 TTAAATTTATCTTAAAT
1 TTAAATTTA-CTTAAAT
*
27183461 TTAAATTTAATT--AT
1 TTAAATTTACTTAAAT
*
27183475 TTAGATTTACTTTAAAT
1 TTAAATTTAC-TTAAAT
27183492 TTAAATTTA
1 TTAAATTTA
27183501 AAATAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.21
15 2 0.04
16 10 0.21
17 25 0.53
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTTACTTAAAT
Found at i:27183483 original size:31 final size:31
Alignment explanation
Indices: 27183442--27183501 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
27183432 ATTGATTTAA
27183442 ATTTAAATTTA-TCTTAAATTTAAATTTAATT
1 ATTTAAATTTACT-TTAAATTTAAATTTAATT
*
27183473 ATTTAGATTTACTTTAAATTTAAATTTAA
1 ATTTAAATTTACTTTAAATTTAAATTTAA
27183502 AATAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTAATT
Found at i:27184535 original size:25 final size:26
Alignment explanation
Indices: 27184507--27184569 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
27184497 TTTTTTTTTA
*
27184507 AAAATGAGAAAAAC-CAAAA-GGAAAG
1 AAAA-GAGAAAAACAAAAAAGGGAAAG
*
27184532 AAAA-AG-AAAACAAAAAAGGGGAAG
1 AAAAGAGAAAAACAAAAAAGGGAAAG
27184556 AAAAGAGAAAAACA
1 AAAAGAGAAAAACA
27184570 TACGTTGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 5 0.16
23 6 0.19
24 9 0.28
25 6 0.19
26 6 0.19
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.02
Consensus pattern (26 bp):
AAAAGAGAAAAACAAAAAAGGGAAAG
Found at i:27185376 original size:30 final size:30
Alignment explanation
Indices: 27185340--27185482 Score: 123
Period size: 30 Copynumber: 4.9 Consensus size: 30
27185330 AAATTATCCA
27185340 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * * *
27185370 AAAATTATATTTTGACCCTAACACTCTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
27185400 AAAATCATATTTTGACCTCAAAA--TTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *** *
27185428 AAAATTGCATTTTTACCTTGAAAC-TTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
27185457 AAAATTACCATTTT-ACCCCCAAACTT
1 AAAATTA-CATTTTGACCCCAAAACTT
27185483 CCCTATATCC
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
28 21 0.23
29 17 0.19
30 52 0.58
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:27185470 original size:58 final size:59
Alignment explanation
Indices: 27185338--27185482 Score: 154
Period size: 58 Copynumber: 2.5 Consensus size: 59
27185328 CTAAATTATC
*
27185338 CAAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAACACTCTT
1 CAAAAATTACATTTTGACCCCAAAAC-TTTCCAAAATTACATTTTGACCCTAACACTCTT
* * * * * * *
27185398 CCAAAATCATATTTTGACCTCAAAA-TTTCCAAAATTGCATTTTTACCTTGAA-ACT-TT
1 CAAAAATTACATTTTGACCCCAAAACTTTCCAAAATTACATTTTGACCCT-AACACTCTT
*
27185455 CAAAAATTACCATTTT-ACCCCCAAACTT
1 CAAAAATTA-CATTTTGACCCCAAAACTT
27185483 CCCTATATCC
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
57 16 0.23
58 30 0.43
59 2 0.03
60 21 0.30
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (59 bp):
CAAAAATTACATTTTGACCCCAAAACTTTCCAAAATTACATTTTGACCCTAACACTCTT
Found at i:27185497 original size:58 final size:56
Alignment explanation
Indices: 27185452--27185587 Score: 184
Period size: 58 Copynumber: 2.4 Consensus size: 56
27185442 ACCTTGAAAC
*
27185452 TTTCA-AAAATTACCATTTTACCCCCAAACTTCCCTATATCCCATTTTTAACCCCGA
1 TTTCATAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTT-ACCCCGA
* *
27185508 TTTCATTAAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCCGT
1 TTTCA-TAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTT-ACCCCGA
*
27185566 TTTCACCAAAATCTACCATTTT
1 TTTCA-TAAAAT-TACCATTTT
27185588 GTCCCCGGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 5 0.07
58 58 0.81
59 9 0.12
ACGTcount: A:0.30, C:0.32, G:0.01, T:0.37
Consensus pattern (56 bp):
TTTCATAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTACCCCGA
Found at i:27185554 original size:28 final size:27
Alignment explanation
Indices: 27185464--27185556 Score: 71
Period size: 28 Copynumber: 3.3 Consensus size: 27
27185454 TCAAAAATTA
*
27185464 CCATTTTACCCCCAAACTTCCCTATATC
1 CCATTTTA-CCCCAAACTTCCCTAAATC
* * ** *
27185492 CCATTTTTAACCCC-GATTTCATTAAAATTA
1 CCA-TTTT-ACCCCAAACTTCCCT-AAA-TC
27185522 CCATTTTACCCTCAAACTTCCCTAAATC
1 CCATTTTACCC-CAAACTTCCCTAAATC
27185550 CCATTTT
1 CCATTTT
27185557 TAACCCCGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
28 20 0.42
29 18 0.38
30 10 0.21
ACGTcount: A:0.28, C:0.34, G:0.01, T:0.37
Consensus pattern (27 bp):
CCATTTTACCCCAAACTTCCCTAAATC
Found at i:27190996 original size:59 final size:59
Alignment explanation
Indices: 27190946--27191478 Score: 734
Period size: 59 Copynumber: 9.1 Consensus size: 59
27190936 GGGCAAAACA
* *
27190946 GTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGAGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* *
27191005 GTAA-TTTCGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* *
27191063 GTAATTTTTGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTTGGGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * * * *
27191122 GTAATTTTTAGTGAAATCGAGGTTAAAACA--AAATTTTAAAAGATTCGGGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAA-ATGGAATTTTAGAAGCTTCGGGGGTAAAATG
*
27191180 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTTGGGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * * * * *
27191239 GTAATTTTTGGTGAAATCGAGTTTAAAAAATGGAATTTTAAAAGATTTGGGGGTAAAATA
1 GTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * * * *
27191299 GTAATTTTCGGTGAAATCGGGGTT-AAAATAGAATTTTAAAAGATTCGAGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * * *
27191357 GTAATTTTCGATGAAATCGGGTTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATA
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * *
27191416 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT-GTAAGTTTCAGGGGTAAAATG
1 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG-AAGCTTCGGGGGTAAAATG
27191475 GTAA
1 GTAA
27191479 GTTTCAGGGG
Statistics
Matches: 424, Mismatches: 43, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
57 1 0.00
58 157 0.37
59 212 0.50
60 54 0.13
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (59 bp):
GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
Found at i:27191105 original size:117 final size:118
Alignment explanation
Indices: 27190940--27191483 Score: 733
Period size: 117 Copynumber: 4.6 Consensus size: 118
27190930 ACCCGAGGGC
* *
27190940 AAAACAGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGAGGGTAAAATG
1 AAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGTAAAATG
* * * *
27191005 GTAA-TTTCGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
66 GTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * * *
27191057 AAAATGGTAATTTTTGGGGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTTGGGGGTAAAATG
1 AAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGTAAAATG
** *
27191122 GTAATTTTTAGTGAAATCGAGGTTAAAACA--AAATTTTAAAAGATTCGGGGGT
66 GTAATTTTCGGTGAAATCGAGGTTAAAA-ATGGAATTTTAAAAGATTCGGGGGT
* * *
27191174 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTTGGGGGTAAAATG
1 AAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGTAAAATG
* * *
27191239 GTAATTTTTGGTGAAATCGAGTTTAAAAAATGGAATTTTAAAAGATTTGGGGGT
66 GTAATTTTCGGTGAAATCGAGGTT-AAAAATGGAATTTTAAAAGATTCGGGGGT
* * * *
27191293 AAAATAGTAATTTTCGGTGAAATCGGGGTT-AAAATAGAATTTTAAAAGATTCGAGGGTAAAATG
1 AAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGTAAAATG
* * *
27191357 GTAATTTTCGATGAAATCG-GGTTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
66 GTAATTTTCGGTGAAATCGAGG-TTAAAAATGGAATTTTAAAAGATTCGGGGGT
* *
27191410 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT-GTAAGTTTC-AGGGGTAAAA
1 AAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG-AAGCTTCGA-GGGTAAAA
*
27191473 TGGTAAGTTTC
64 TGGTAATTTTC
27191484 AGGGGTAAAA
Statistics
Matches: 383, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
117 227 0.59
118 107 0.28
119 49 0.13
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (118 bp):
AAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGTAAAATG
GTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
Found at i:27191437 original size:29 final size:29
Alignment explanation
Indices: 27191288--27191443 Score: 113
Period size: 29 Copynumber: 5.3 Consensus size: 29
27191278 AAAAGATTTG
*
27191288 GGGGTAAAATAGTAATTTTCGGTGAAATC
1 GGGGTAAAATAGTAATTTTCGATGAAATC
** * *
27191317 GGGGTTAAAATAG-AATTTTAAAAG-ATTC
1 GGGG-TAAAATAGTAATTTTCGATGAAATC
*
27191345 GAGGGTAAAATGGTAATTTTCGATGAAATC
1 G-GGGTAAAATAGTAATTTTCGATGAAATC
* * * * **
27191375 GGGTTTAAAA-ATGGAATTTTAGAAG-CTTC
1 GGG-GTAAAATA-GTAATTTTCGATGAAATC
*
27191404 GGGGGTAAAATAGTAATTTTCGGTGAAATC
1 -GGGGTAAAATAGTAATTTTCGATGAAATC
27191434 GGGGTTAAAA
1 GGGG-TAAAA
27191444 ATGGAATTTT
Statistics
Matches: 93, Mismatches: 24, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
28 11 0.12
29 44 0.47
30 38 0.41
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (29 bp):
GGGGTAAAATAGTAATTTTCGATGAAATC
Found at i:27191480 original size:21 final size:21
Alignment explanation
Indices: 27191454--27191499 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
27191444 ATGGAATTTT
27191454 GTAAGTTTCAGGGGTAAAATG
1 GTAAGTTTCAGGGGTAAAATG
27191475 GTAAGTTTCAGGGGTAAAATG
1 GTAAGTTTCAGGGGTAAAATG
27191496 GTAA
1 GTAA
27191500 TTTTGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.28
Consensus pattern (21 bp):
GTAAGTTTCAGGGGTAAAATG
Found at i:27191588 original size:30 final size:28
Alignment explanation
Indices: 27191477--27191589 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 28
27191467 GTAAAATGGT
*
27191477 AAGTTTCAGGGGTAAAATGGTAATTTTGAA
1 AAGTTT-AGGGGTAAAAT-ATAATTTTGAA
* *
27191507 AA-TTTTGGGGTCAAAGTATAATTTTGGAA
1 AAGTTTAGGGGT-AAAATATAATTTT-GAA
27191536 AAGTTT-GGGGTTAAAATATAATTTTAGAA
1 AAGTTTAGGGG-TAAAATATAATTTT-GAA
*
27191565 AAGTTTCAGGGGTAAAATGTAATTT
1 AAGTTT-AGGGGTAAAATATAATTT
27191590 CTGGACAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
28 12 0.17
29 37 0.52
30 18 0.25
31 4 0.06
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (28 bp):
AAGTTTAGGGGTAAAATATAATTTTGAA
Found at i:27191871 original size:161 final size:162
Alignment explanation
Indices: 27191687--27192010 Score: 447
Period size: 162 Copynumber: 2.0 Consensus size: 162
27191677 ATTTGAAAAT
* *
27191687 CTTGAAAAATTTTTGGACCAATTTTGTAATT-AAATAAAAGTCGATTTAAGGATTAAATTAAAA-
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAAAT-AAAGTCGATTTAAGGATTAAATTAAAAT
* ** *
27191750 CAATTTAAAATAAAAAGGACTAAATGAAGAAATAATCCGAAGA-ATGACACGTGGCAACTTCTGG
65 AAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCC-AAGACATGACACGTGGCAACCTCTGG
** **
27191814 TGCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
129 CACAGTCAAACAGTCAAAGGACTAAATTATAAAC
* * **
27191848 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAATA
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAATA
* * *
27191913 AATAAAAAATAAAAAGGACTAAATGCATAAATAATCCAATACATGACACGTGGCAACCTCTGGCA
66 AATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAGACATGACACGTGGCAACCTCTGGCA
*
27191978 CAGTCAAACAGTCAGAGGACTAAATTATAAAC
131 CAGTCAAACAGTCAAAGGACTAAATTATAAAC
27192010 C
1 C
27192011 AATTAAAATT
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
161 55 0.39
162 87 0.61
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (162 bp):
CTTGAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAATA
AATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAGACATGACACGTGGCAACCTCTGGCA
CAGTCAAACAGTCAAAGGACTAAATTATAAAC
Found at i:27192080 original size:162 final size:161
Alignment explanation
Indices: 27191733--27192083 Score: 370
Period size: 162 Copynumber: 2.2 Consensus size: 161
27191723 AAAGTCGATT
* **
27191733 TAAGGATTAAATTAAAAC-AATTTAAAATAAAAAGGACTAAATGAAGAAATAATCCGAAGAATGA
1 TAAGGACTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCGAAGAATGA
* ** ** **
27191797 CACGTGGCAACTTCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATT
66 CACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATTACA
* * * * **
27191862 GGGCCAATTTCGTAATTAAAATAAAGTTGATT
130 GGGCAAATTTCGCAAATAAAATAAAGATGACA
** * * * * *
27191894 TGGGGATTAAATTAAAATAAATAAAAAATAAAAAGGACTAAATGCATAAATAATCC-AATACATG
1 TAAGGACTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCGAAGA-ATG
*
27191958 ACACGTGGCAACCTCTGGCACAGTCAAACAGTCAGAGGACTAAATTATAAACCAATT-AAAATTA
65 ACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAATTA
*
27192022 CAGGGCAAATTT-GCAAATAATTAA-AAAGATGCCA
128 CAGGGCAAATTTCGCAAATAA--AATAAAGATGACA
* *
27192056 TAAGGACTAAATTGAAGCAAATAAAAAA
1 TAAGGACTAAATTAAAACAAATAAAAAA
27192084 GCGGAAGGAC
Statistics
Matches: 155, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
161 24 0.15
162 127 0.82
163 2 0.01
164 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.24
Consensus pattern (161 bp):
TAAGGACTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCGAAGAATGA
CACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTACAG
GGCAAATTTCGCAAATAAAATAAAGATGACA
Found at i:27193640 original size:6 final size:6
Alignment explanation
Indices: 27193629--27193695 Score: 75
Period size: 6 Copynumber: 11.2 Consensus size: 6
27193619 TTTAATCTTT
*
27193629 ATTTAA ATTTAA ATTTAA A-TTAA ATTTAA ATATCTAA TTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA
* *
27193678 A-ATAA ATCTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
27193696 CAAATTTAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.17
6 37 0.71
7 2 0.04
8 4 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:27193700 original size:27 final size:25
Alignment explanation
Indices: 27193670--27193719 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
27193660 ATCTAATTTT
27193670 AAATTTA-AAATAAATCTAAATTTAAAC
1 AAATTTAGAAA-AAATC--AATTTAAAC
27193697 AAATTTAGAAAAAATCAATTTAA
1 AAATTTAGAAAAAATCAATTTAA
27193720 CTCAAAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
27 12 0.55
28 3 0.14
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (25 bp):
AAATTTAGAAAAAATCAATTTAAAC
Found at i:27195601 original size:20 final size:20
Alignment explanation
Indices: 27195578--27195615 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27195568 ATTCAAGCCA
* *
27195578 AGTAGTTTCCATTTCTCTAG
1 AGTAGTTACAATTTCTCTAG
27195598 AGTAGTTACAATTTCTCT
1 AGTAGTTACAATTTCTCT
27195616 TCCTGTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (20 bp):
AGTAGTTACAATTTCTCTAG
Found at i:27215083 original size:21 final size:21
Alignment explanation
Indices: 27215054--27215095 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27215044 AGGTGAGGGC
27215054 GGAGGACGA-GCCAGAATATGA
1 GGAGGACGATGCC-GAATATGA
*
27215075 GGAGTACGATGCCGAATATGA
1 GGAGGACGATGCCGAATATGA
27215096 ACAAGAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGACGATGCCGAATATGA
Found at i:27215716 original size:20 final size:20
Alignment explanation
Indices: 27215682--27215722 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27215672 ATTCAAATTC
* *
27215682 ATTACAATATCATTTTTTTA
1 ATTACAATATAATTTTGTTA
*
27215702 ATTACAATTTAATTTTGTTA
1 ATTACAATATAATTTTGTTA
27215722 A
1 A
27215723 CAGTTAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTACAATATAATTTTGTTA
Found at i:27215767 original size:29 final size:28
Alignment explanation
Indices: 27215735--27215796 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
27215725 GTTAAACTTG
* *
27215735 AATTTTAAAATTTGAAAAATA-AAATACTA
1 AATTTTAAAA-AT-AAAAATATAAAAACTA
27215764 AATTTTTAAAAATAAAAATATAAAAACTA
1 AA-TTTTAAAAATAAAAATATAAAAACTA
27215793 AATT
1 AATT
27215797 CTATATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 9 0.31
29 12 0.41
30 8 0.28
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (28 bp):
AATTTTAAAAATAAAAATATAAAAACTA
Found at i:27215787 original size:22 final size:22
Alignment explanation
Indices: 27215740--27215788 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
27215730 ACTTGAATTT
27215740 TAAAATTTGAAAAATAAAATAC
1 TAAAATTTGAAAAATAAAATAC
* *
27215762 TAAATTTTTAAAAATAAAAATA-
1 TAAAATTTGAAAAAT-AAAATAC
27215784 TAAAA
1 TAAAA
27215789 ACTAAATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATTTGAAAAATAAAATAC
Found at i:27215880 original size:18 final size:19
Alignment explanation
Indices: 27215841--27215881 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
27215831 ATCTTAACTT
27215841 TTTAATTATGGAAATCTTA
1 TTTAATTATGGAAATCTTA
*
27215860 TTTAATTATGG-AATTTTA
1 TTTAATTATGGAAATCTTA
27215878 TTTA
1 TTTA
27215882 TGAGAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTAATTATGGAAATCTTA
Found at i:27216195 original size:14 final size:14
Alignment explanation
Indices: 27216178--27216205 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27216168 TAATCATACT
27216178 AATATATTCAAAAA
1 AATATATTCAAAAA
27216192 AATATATTCAAAAA
1 AATATATTCAAAAA
27216206 CCAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
AATATATTCAAAAA
Found at i:27230674 original size:6 final size:6
Alignment explanation
Indices: 27230663--27230697 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
27230653 GGATTGAGAT
27230663 GATGAA GATGAA GATGAA GATGAA GATGAA GATGA
1 GATGAA GATGAA GATGAA GATGAA GATGAA GATGA
27230698 TGGTGTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (6 bp):
GATGAA
Found at i:27231273 original size:23 final size:23
Alignment explanation
Indices: 27231229--27231274 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27231219 ACATTGTTCG
* *
27231229 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
27231252 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
27231275 CAAACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:27234897 original size:30 final size:30
Alignment explanation
Indices: 27234783--27235064 Score: 326
Period size: 30 Copynumber: 9.4 Consensus size: 30
27234773 ATCGAGGCTA
* *
27234783 AAAATGGAATTTAGG-AAAG-TTTGAGGGT-
1 AAAATGTAATTTTGGAAAAGTTTTG-GGGTC
* *
27234811 GAAATGGTAATTTTTG-AAAGTTTTGGGGT-
1 AAAAT-GTAATTTTGGAAAAGTTTTGGGGTC
* *
27234840 AGAAATGCAATTTTTAGAAAAGTTTTGGGGTC
1 A-AAATGTAA-TTTTGGAAAAGTTTTGGGGTC
*
27234872 AAAATGTAATTTTGGAAAGGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
27234902 AAAATGTAATTTTTGAAAAGTTTTAGGGTTA
1 AAAATGTAATTTTGGAAAAGTTTT-GGGGTC
*
27234933 AAAACGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
27234963 AAAATGTAATTTTGG-AAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
27234992 AAAATGTAATTTTGGAAAAGTTTTGGGG-C
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
27235021 TAAAATATAATTTTTGAAAAGTTTTGGGGTC
1 -AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
27235052 AAAATGTAGTTTT
1 AAAATGTAATTTT
27235065 TGGATAATTT
Statistics
Matches: 219, Mismatches: 25, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
28 4 0.02
29 47 0.21
30 120 0.55
31 47 0.21
32 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:27234907 original size:61 final size:60
Alignment explanation
Indices: 27234812--27235064 Score: 343
Period size: 61 Copynumber: 4.2 Consensus size: 60
27234802 TTTGAGGGTG
* *
27234812 AAATGGTAATTTTTG-AAAGTTTTGGGGT-AGAAATGCAATTTTTAGAAAAGTTTTGGGGTCA
1 AAAT-GTAATTTTGGAAAAGTTTTGGGGTCA-AAATGTAATTTTT-GAAAAGTTTTGGGGTCA
* * *
27234873 AAATGTAATTTTGGAAAGGTTTTGGGGTCAAAATGTAATTTTTGAAAAGTTTTAGGGTTAA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTGAAAAGTTTT-GGGGTCA
* * *
27234934 AAACGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTTGGAAAGTTTTAGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTGAAAAGTTTTGGGGTCA
*
27234993 AAATGTAATTTTGGAAAAGTTTTGGGG-CTAAAATATAATTTTTGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTC-AAAATGTAATTTTTGAAAAGTTTTGGGGTCA
*
27235053 AAATGTAGTTTT
1 AAATGTAATTTT
27235065 TGGATAATTT
Statistics
Matches: 171, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
58 1 0.01
59 38 0.22
60 62 0.36
61 69 0.40
62 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (60 bp):
AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTGAAAAGTTTTGGGGTCA
Found at i:27235065 original size:30 final size:30
Alignment explanation
Indices: 27234812--27235066 Score: 329
Period size: 30 Copynumber: 8.5 Consensus size: 30
27234802 TTTGAGGGTG
27234812 AAATGGTAATTTTTG-AAAGTTTTGGGGT-A
1 AAAT-GTAATTTTTGAAAAGTTTTGGGGTCA
*
27234841 GAAATGCAATTTTTAGAAAAGTTTTGGGGTCA
1 -AAATGTAATTTTT-GAAAAGTTTTGGGGTCA
* *
27234873 AAATGTAATTTTGGAAAGGTTTTGGGGTCA
1 AAATGTAATTTTTGAAAAGTTTTGGGGTCA
* *
27234903 AAATGTAATTTTTGAAAAGTTTTAGGGTTAA
1 AAATGTAATTTTTGAAAAGTTTT-GGGGTCA
* *
27234934 AAACGTAATTTTGGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTTGAAAAGTTTTGGGGTCA
* *
27234964 AAATGTAA-TTTTGGAAAGTTTTAGGGTCA
1 AAATGTAATTTTTGAAAAGTTTTGGGGTCA
*
27234993 AAATGTAATTTTGGAAAAGTTTTGGGG-CTA
1 AAATGTAATTTTTGAAAAGTTTTGGGGTC-A
*
27235023 AAATATAATTTTTGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTTGAAAAGTTTTGGGGTCA
*
27235053 AAATGTAGTTTTTG
1 AAATGTAATTTTTG
27235067 GATAATTTAG
Statistics
Matches: 195, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
29 35 0.18
30 108 0.55
31 51 0.26
32 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
AAATGTAATTTTTGAAAAGTTTTGGGGTCA
Found at i:27236741 original size:26 final size:28
Alignment explanation
Indices: 27236696--27236747 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
27236686 GACATTGAAC
27236696 TTTTAATTTTTTAATGTTAAATTTAATG
1 TTTTAATTTTTTAATGTTAAATTTAATG
27236724 TTTTAATTTTTT-AT-TTAAATTTAA
1 TTTTAATTTTTTAATGTTAAATTTAA
27236748 ATTCAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTAATTTTTTAATGTTAAATTTAATG
Found at i:27236745 original size:6 final size:6
Alignment explanation
Indices: 27236736--27236796 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
27236726 TTAATTTTTT
* *
27236736 ATTTAA ATTTAA ATTCAA A-GTAA ATTTAA ATAATTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA ATTTAA
*
27236785 A-ATAA ATTTAA A
1 ATTTAA ATTTAA A
27236797 ATCAATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 7 0.16
6 32 0.71
8 6 0.13
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
ATTTAA
Found at i:27236775 original size:31 final size:31
Alignment explanation
Indices: 27236738--27236796 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
27236728 AATTTTTTAT
*
27236738 TTAAATTTAAATTCAAAGTAAATTTAAATAA
1 TTAAATTTAAATTCAAAATAAATTTAAATAA
*
27236769 TTAAATTTAAATTTAAAATAAATTTAAA
1 TTAAATTTAAATTCAAAATAAATTTAAA
27236797 ATCAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
TTAAATTTAAATTCAAAATAAATTTAAATAA
Found at i:27236790 original size:11 final size:11
Alignment explanation
Indices: 27236745--27236806 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
27236735 TATTTAAATT
* *
27236745 TAAATTCAAAG
1 TAAATTTAAAA
27236756 TAAATTT-AAA
1 TAAATTTAAAA
*
27236766 T-AA-TTAAATT
1 TAAATTTAAA-A
27236776 TAAATTTAAAA
1 TAAATTTAAAA
27236787 TAAATTTAAAA
1 TAAATTTAAAA
*
27236798 TCAATTTAA
1 TAAATTTAA
27236807 CTCTAAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 2 0.05
9 4 0.10
10 4 0.10
11 27 0.64
12 5 0.12
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:27242908 original size:18 final size:18
Alignment explanation
Indices: 27242885--27242922 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
27242875 GTCTTTTCAT
27242885 ATTAAATA-TAAAAGAATA
1 ATTAAATAGTAAAA-AATA
27242903 ATTAAATAGTAAAAAATA
1 ATTAAATAGTAAAAAATA
27242921 AT
1 AT
27242923 GCAGTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
ATTAAATAGTAAAAAATA
Found at i:27244612 original size:13 final size:13
Alignment explanation
Indices: 27244594--27244618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27244584 TAGGAAATAG
27244594 GGACACACGGGCT
1 GGACACACGGGCT
27244607 GGACACACGGGC
1 GGACACACGGGC
27244619 GTGTCCTATA
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:0.24, C:0.32, G:0.40, T:0.04
Consensus pattern (13 bp):
GGACACACGGGCT
Found at i:27245145 original size:40 final size:40
Alignment explanation
Indices: 27245038--27245146 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
27245028 TTACTATTAC
* * *
27245038 TGAACTGGTATTGACACTGTAAACACTACGATATTACTAA
1 TGAACTGGTAGTGACACTGTAAACACTGCGACATTACTAA
** *
27245078 TGAACTGACAGTGACACTTTAAACACTGCGACATTAC-AA
1 TGAACTGGTAGTGACACTGTAAACACTGCGACATTACTAA
* *
27245117 TTGAACTGGTAGGGATACTGTAAACACTGC
1 -TGAACTGGTAGTGACACTGTAAACACTGC
27245147 AATATACGAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 2 0.04
40 55 0.96
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (40 bp):
TGAACTGGTAGTGACACTGTAAACACTGCGACATTACTAA
Found at i:27248476 original size:201 final size:200
Alignment explanation
Indices: 27248130--27249468 Score: 1232
Period size: 201 Copynumber: 6.7 Consensus size: 200
27248120 TGAGGAAGTT
* * * * * * *
27248130 GAGTTCCTAATATCCCTTTCTTTACCACCACAAGAATCTGAAACATTTGGTGTTGAAATTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * *
27248195 TTCAGAGCAACTTGATGCAAGGGTCACCGGCCTTGTCATGTTTCTCATATCCAATTCATCTCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCA
* * * * * * *
27248260 CGACATTGATGGGTTCTGGAGATGAGGAAAAGGAGTTGCCGATATCCATTTCTTTAACAACGGAG
131 CAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTT-CCAATATCCATTTCTTTAACACCAGAG
*
27248325 GGCATG
195 GGAATG
* *
27248331 GAGTTCCT-ACAATCCATTTCTTTAACACCAGAATAATCCAAAACATTTGGTGTGGAACTTAAAG
1 GAGTTCCTAAC-ATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAG
* * * *
27248395 CTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTACATCCAATTCATCCCTC
65 CTTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTC
* * * * * ***
27248460 GCAGCATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAAAAGTGGA
130 ACAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTT-CCAATATCCATTTCTTTAACACCAGA
*
27248525 GGGCATG
194 GGGAATG
* *** * * *
27248532 GAGTTCCGAACATCCACCCCTTTAACACAAGAATAATCCGAAACATTTGATGTTGAACTTATAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * *
27248597 TTCATAGCAGCTTGCTGCAAGGGTCACTGGACTAATCCTGTTTCTCATATCTAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCA
* * * * *
27248662 CAACATTCATGGGTTCTGAAGATGAGGAAATGGAGTTCACAATATCCATTTCTTGAACACCGGAG
131 CAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTTC-CAATATCCATTTCTTTAACACCAGAG
*
27248727 GTAAT-
195 GGAATG
** * *
27248732 G-G--------A--CATTTCTTCGACACCAGAATAATCTGAAATATTTGGTGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * ** *
27248786 TCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCA
* * * * * ** *
27248851 TAACATTTATCAGTTCAGGGGATGAGGAGATGGAGTTCTCAATATCCATAACTTTAACACCAGAA
131 CAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTTC-CAATATCCATTTCTTTAACACCAGAG
**
27248916 GGAACA
195 GGAATG
* * *
27248922 GAGTTCCTAATATCCGTTTCTTCT-ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAACATCCATTTCTT-TAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAG
* * * * * * *
27248986 CTTCAGAGAAATTTGATGTAATGGTCACTGGACGAGTCGA-GTTTCTCATATACAGTTCATCCCT
65 CTTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTC-ATGTTTCTCATATCCAATTCATCCCT
** ** ** * * * * * *
27249050 TGCTTCATTTACAAGTTTTGGGGATGAAGAAGTGGAGTTACTAATATCCATTTCTTTAACAGCAG
129 CACAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTT-CCAATATCCATTTCTTTAACACCAG
* *
27249115 AGTGAATA
193 AGGGAATG
* * ** * * *
27249123 GAGCTCCTAACATCCGTTTCTTCGACATCAGAATAATCCGAAACATTTGGTGCTGAGCTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
** ** * * * *
27249188 TTCAGAGCAACCAGACACAAGGGTCACTGGGCTAATCATGGTTCTCGTATCCAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCA
* * * * * * * ** * *
27249253 CATCATCTATAAGTCCTCGAGATGAGGAAACGCAGCACCTAGTATCCGTTTCTTTAACACCAGAG
131 CAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTTCC-AATATCCATTTCTTTAACACCAGAG
27249318 GGAATG
195 GGAATG
* ** * * * *
27249324 GAGTTCCTCACATCCATTTCCGTGAGACCAGAATAATCCAAAACATTTGGTGTTGAACTTGAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * *
27249389 TTCAGTGCAACTTGATGTAAGAGTCAGTGGACTAGTCATGTTTCTCATATACAATTCATTCCTCG
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCA
*
27249454 CAACACTTATGAGTT
131 CAACATTTATGAGTT
27249469 TTCCAACATC
Statistics
Matches: 918, Mismatches: 199, Indels: 42
0.79 0.17 0.04
Matches are distributed among these distances:
189 149 0.16
190 1 0.00
191 2 0.00
199 2 0.00
200 5 0.01
201 756 0.82
202 3 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (200 bp):
GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCA
CAACATTTATGAGTTCTGGAGATGAGGAAATGGAGTTCCAATATCCATTTCTTTAACACCAGAGG
GAATG
Found at i:27248886 original size:189 final size:193
Alignment explanation
Indices: 27248556--27249049 Score: 510
Period size: 189 Copynumber: 2.5 Consensus size: 193
27248546 CACCCCTTTA
* * * * * * * * ** * *
27248556 ACACAAGAATAATCCGAAACATTTGATGTTGAACTTATAGCTTCATAGCAGCTTGCTGCAAGGGT
1 ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTAATGTAATGGT
* * ** *
27248621 CACTGGACTAATCCTGTTTCTCATATCTAATTCATCCCTCACAACATTCATGGGTTCTGAAGATG
66 CACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCTCACAACATTCATCAGTTCAGAAGATG
** *
27248686 AGGAAATGGAGTTCACAATATCCATTTCTTGAACACC-GG-AG-G-TAATGGACATTTCTTCG
131 AGGAAATGGAGTTCACAATATCCATAACTTGAACACCAGGAAGAGCTAATAGACATTTCTTCG
* *
27248745 ACACCAGAATAATCTGAAATATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTAATGTATTGGT
1 ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTAATGTAATGGT
* * **
27248810 CACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCTCATAACATTTATCAGTTCAGGGGATG
66 CACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCTCACAACATTCATCAGTTCAGAAGATG
* * * ** *
27248875 AGGAGATGGAGTTCTCAATATCCATAACTTTAACACCAGAAGGAACAGAGTTCCTAATATCCGTT
131 AGGAAATGGAGTTCACAATATCCATAACTTGAACACC---AGG-A-AGAG---CTAATAGACATT
*
27248940 TCTTCT
188 TCTTCG
* * * *
27248946 ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGCTTCAGAGAAATTTGATGTAATGGT
1 ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTAATGTAATGGT
* ** * *
27249011 CACTGGACGAGTCGAGTTTCTCATATACAGTTCATCCCT
66 CACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCT
27249050 TGCTTCATTT
Statistics
Matches: 249, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
189 139 0.56
193 2 0.01
196 2 0.01
197 1 0.00
201 105 0.42
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (193 bp):
ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTAATGTAATGGT
CACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCTCACAACATTCATCAGTTCAGAAGATG
AGGAAATGGAGTTCACAATATCCATAACTTGAACACCAGGAAGAGCTAATAGACATTTCTTCG
Found at i:27249246 original size:591 final size:591
Alignment explanation
Indices: 27248155--27249254 Score: 1294
Period size: 591 Copynumber: 1.9 Consensus size: 591
27248145 CTTTCTTTAC
* * * *
27248155 CACCACAAGAATCTGAAACATTTGGTGTTGAAATTAAAGCTTCAGAGCAACTTGATGCAAGGGTC
1 CACCACAAGAATCTGAAACATTTGGTGTTGAAATTAAAGCTCCACAGAAACTTAATGCAAGGGTC
* * * * ** *
27248220 ACCGGCCTTGTCATGTTTCTCATATCCAATTCATCTCTCACGACATTGATGGGTTCTGGAGATGA
66 ACCGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCACAACATTGATCAGTTCAGGAGATGA
* ** * * * **
27248285 GGAAAAGGAGTTGCCGATATCCATTTCTTTAACAACGGAGGGCATGGAGTTCCTACAATCCATTT
131 GGAAAAGGAGTTGCCAATATCCATAACTTTAACAACAGAAGGAACAGAGTTCCTACAATCCATTT
* *
27248350 CTTTAACACCAGAATAATCCAAAACATTTGGTGTGGAACTTAAAGCTTCAGAGCAGCTTGATGCA
196 CTTTAACACCAGAATAATCCAAAACATTTGGTGTGGAACTTAAAGCTTCAGAGAAACTTGATGCA
* * * ****
27248415 AGGGTCACTGAACTAGTCATGTTTCTTACATCCAATTCATCCCTCGCAGCATTTGTGGGTTCTGG
261 AGGGTCACTGAACGAGTCATGTTTCTCACATACAATTCATCCCTCGCAGCATTTACAAGTTCTGG
* * ** * * *
27248480 AGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAAAAGTGGAGGGCATGGAGTTCCGAACAT
326 AGATGAAGAAATGGAGTTACCAATATCCATTTCTTTAAAAGCAGAGGGAATAGAGCTCCGAACAT
* * * * * **
27248545 CCACCCCTTTAACACAAGAATAATCCGAAACATTTGATGTTGAACTTATAGCTTCATAGCAGCTT
391 CCACCCCTTCAACACAAGAATAATCCGAAACATTTGATGCTGAACTTAAAGCTTCAGAGCAACCA
* * * *
27248610 GCTGCAAGGGTCACTGGACTAATCCTGTTTCTCATATCTAATTCATCCCTCACAACATTCATGGG
456 GCTACAAGGGTCACTGGACTAATCATGGTTCTCATATCCAATTCATCCCTCACAACATTCATGGG
27248675 TTCTGAAGATGAGGAAATGGAGTTCACAATATCCATTTCTTGAACACCGGAGGTAATGGACATTT
521 TTCTGAAGATGAGGAAATGGAGTTCACAATATCCATTTCTTGAACACCGGAGGTAATGGACATTT
27248740 CTTCGA
586 CTTCGA
* * * * * **
27248746 CACCAGAATAATCTGAAATATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTAATGTATTGGTC
1 CACCACAAGAATCTGAAACATTTGGTGTTGAAATTAAAGCTCCACAGAAACTTAATGCAAGGGTC
* * * * *
27248811 ACTGGACTAGTCCTGTTTCTCATATCCAATTCATCCCTCATAACATTTATCAGTTCAGGGGATGA
66 ACCGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCACAACATTGATCAGTTCAGGAGATGA
* * * *
27248876 GGAGATGGAGTT-CTCAATATCCATAACTTTAACACCAGAAGGAACAGAGTTCCTA-ATATCCGT
131 GGAAAAGGAGTTGC-CAATATCCATAACTTTAACAACAGAAGGAACAGAGTTCCTACA-ATCCAT
** * *
27248939 TTCTTCT-ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGCTTCAGAGAAATTTGAT
194 TTCTT-TAACACCAGAATAATCCAAAACATTTGGTGTGGAACTTAAAGCTTCAGAGAAACTTGAT
* * * * * * **
27249003 GTAATGGTCACTGGACGAGTCGA-GTTTCTCATATACAGTTCATCCCTTGCTTCATTTACAAGTT
258 GCAAGGGTCACTGAACGAGTC-ATGTTTCTCACATACAATTCATCCCTCGCAGCATTTACAAGTT
* * * * * * *
27249067 TTGGGGATGAAGAAGTGGAGTTACTAATATCCATTTCTTTAACAGCAGAGTGAATAGAGCTCCTA
322 CTGGAGATGAAGAAATGGAGTTACCAATATCCATTTCTTTAAAAGCAGAGGGAATAGAGCTCCGA
**** * * *
27249132 ACATCCGTTTCTTCGACATC-AGAATAATCCGAAACATTTGGTGCTGAGCTTAAAGCTTCAGAGC
387 ACATCCACCCCTTCAACA-CAAGAATAATCCGAAACATTTGATGCTGAACTTAAAGCTTCAGAGC
* *
27249196 AACCAGAC-ACAAGGGTCACTGGGCTAATCATGGTTCTCGTATCCAATTCATCCCTCACA
451 AACCAG-CTACAAGGGTCACTGGACTAATCATGGTTCTCATATCCAATTCATCCCTCACA
27249255 TCATCTATAA
Statistics
Matches: 413, Mismatches: 90, Indels: 12
0.80 0.17 0.02
Matches are distributed among these distances:
590 2 0.00
591 407 0.99
592 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (591 bp):
CACCACAAGAATCTGAAACATTTGGTGTTGAAATTAAAGCTCCACAGAAACTTAATGCAAGGGTC
ACCGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCACAACATTGATCAGTTCAGGAGATGA
GGAAAAGGAGTTGCCAATATCCATAACTTTAACAACAGAAGGAACAGAGTTCCTACAATCCATTT
CTTTAACACCAGAATAATCCAAAACATTTGGTGTGGAACTTAAAGCTTCAGAGAAACTTGATGCA
AGGGTCACTGAACGAGTCATGTTTCTCACATACAATTCATCCCTCGCAGCATTTACAAGTTCTGG
AGATGAAGAAATGGAGTTACCAATATCCATTTCTTTAAAAGCAGAGGGAATAGAGCTCCGAACAT
CCACCCCTTCAACACAAGAATAATCCGAAACATTTGATGCTGAACTTAAAGCTTCAGAGCAACCA
GCTACAAGGGTCACTGGACTAATCATGGTTCTCATATCCAATTCATCCCTCACAACATTCATGGG
TTCTGAAGATGAGGAAATGGAGTTCACAATATCCATTTCTTGAACACCGGAGGTAATGGACATTT
CTTCGA
Found at i:27250019 original size:99 final size:99
Alignment explanation
Indices: 27249876--27250105 Score: 327
Period size: 99 Copynumber: 2.3 Consensus size: 99
27249866 TAAACAGCTC
* *
27249876 ATAGGGGCATCATTATTGCTACTTGGCCTGCTAATGGGGCAATCTCCACCAGCAGTTGGTCCACT
1 ATAGGGGCATCATCATTACTACTTGGCCTGCTAATGGGGCAATCTCCACCAGCAGTTGGTCCACT
* *
27249941 TGCAGGGGCATTTTCCCCAATACTTAACCTGCTT
66 TACAGGAGCATTTTCCCCAATACTTAACCTGCTT
* * * * **
27249975 ATAGAGGCATCAACATTTCTACTTGGCCTGCTAAAT-GGGTAATCTTTACCAGCAGTTGGTCCAC
1 ATAGGGGCATCATCATTACTACTTGGCCTGCT-AATGGGGCAATCTCCACCAGCAGTTGGTCCAC
*
27250039 TTACAGGAGCATTTTCCCCCATACTTAACCTGCTT
65 TTACAGGAGCATTTTCCCCAATACTTAACCTGCTT
**
27250074 ATAGGGGCATCATCACCACTACTTGGCCTGCT
1 ATAGGGGCATCATCATTACTACTTGGCCTGCT
27250106 TATAGGATCA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 112 0.97
100 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (99 bp):
ATAGGGGCATCATCATTACTACTTGGCCTGCTAATGGGGCAATCTCCACCAGCAGTTGGTCCACT
TACAGGAGCATTTTCCCCAATACTTAACCTGCTT
Found at i:27250104 original size:33 final size:32
Alignment explanation
Indices: 27250038--27250187 Score: 113
Period size: 33 Copynumber: 4.6 Consensus size: 32
27250028 AGTTGGTCCA
** * **
27250038 CTTACAGGAGCATTTTCCCCCATACTTAACCTG
1 CTTACAGGAGCATCATCCCAC-TACTTGGCCTG
* *
27250071 CTTATAGGGGCATCATCACCACTACTTGGCCTG
1 CTTACAGGAGCATCATC-CCACTACTTGGCCTG
* * * *
27250104 CTTATAGGATCATCATCCCAGGTACTTGAG-GTG
1 CTTACAGGAGCATCATCCCA-CTACTTG-GCCTG
* * * *
27250137 CTCACAGGGGCATCATCCCTACTACTAGGGCTG
1 CTTACAGGAGCATCATCCC-ACTACTTGGCCTG
27250170 CTTACAGGAGCATCATCC
1 CTTACAGGAGCATCATCC
27250188 GTTCTACTTA
Statistics
Matches: 92, Mismatches: 20, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
32 4 0.04
33 83 0.90
34 5 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (32 bp):
CTTACAGGAGCATCATCCCACTACTTGGCCTG
Found at i:27256554 original size:17 final size:17
Alignment explanation
Indices: 27256498--27256578 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
27256488 TTATATTTAC
27256498 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* * *
27256515 TAAAATTCACATT-TTACAT
1 T---ATTTATATTATTAAAT
27256534 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
*
27256551 TATTTA-ATCACATTAAA-
1 TATTTATAT--TATTAAAT
27256568 TATTTATATTA
1 TATTTATATTA
27256579 AAATTGAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
16 10 0.20
17 18 0.37
18 8 0.16
19 6 0.12
20 7 0.14
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:27257100 original size:9 final size:9
Alignment explanation
Indices: 27257086--27257111 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27257076 TATTTAAAAT
27257086 TTAATTTCC
1 TTAATTTCC
27257095 TTAATTTCC
1 TTAATTTCC
27257104 TTAATTTC
1 TTAATTTC
27257112 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATTTCC
Found at i:27258605 original size:18 final size:18
Alignment explanation
Indices: 27258584--27258620 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27258574 AGGTAGACGA
*
27258584 AAACGTGCCATAAGACAG
1 AAACGTGCCACAAGACAG
27258602 AAACGTGCCACAAGACAG
1 AAACGTGCCACAAGACAG
27258620 A
1 A
27258621 GAAAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.08
Consensus pattern (18 bp):
AAACGTGCCACAAGACAG
Found at i:27259151 original size:16 final size:16
Alignment explanation
Indices: 27259132--27259171 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
27259122 ATTTAGGCCC
27259132 TTTATAATTTATGAAA
1 TTTATAATTTATGAAA
*
27259148 TTTATAATTTATGGAA
1 TTTATAATTTATGAAA
27259164 TTTA-AATT
1 TTTATAATT
27259172 AGTAATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTATAATTTATGAAA
Found at i:27262540 original size:24 final size:25
Alignment explanation
Indices: 27262492--27262540 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
27262482 TCAATAATTT
*
27262492 AATTATTTAAAATTATAAAAATATA
1 AATTATTTAAAATAATAAAAATATA
* *
27262517 AATTA-TTAAAATAATTAAATTATA
1 AATTATTTAAAATAATAAAAATATA
27262541 TTTCTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTATTTAAAATAATAAAAATATA
Found at i:27262866 original size:22 final size:22
Alignment explanation
Indices: 27262824--27262864 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
27262814 ATTTGACTCT
27262824 AGTTTAAAAAAATTCAATTTAA
1 AGTTTAAAAAAATTCAATTTAA
*
27262846 AGTTT-AAAAAATTTAATTT
1 AGTTTAAAAAAATTCAATTT
27262865 TATAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (22 bp):
AGTTTAAAAAAATTCAATTTAA
Found at i:27264284 original size:24 final size:21
Alignment explanation
Indices: 27264244--27264316 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 21
27264234 ATTATATTAT
*
27264244 TGTTTTGTTGCTGTTTTTTTTAC
1 TGTTTTGTTGC--TATTTTTTAC
27264267 TGTTTTGGTTGCTATTTTTTAC
1 TGTTTT-GTTGCTATTTTTTAC
27264289 TGTTTT-TGTG-T-TTTTTTAC
1 TGTTTTGT-TGCTATTTTTTAC
27264308 TGTTTTGTT
1 TGTTTTGTT
27264317 TGTTGTTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
19 15 0.33
20 3 0.07
21 2 0.04
22 15 0.33
23 6 0.13
24 5 0.11
ACGTcount: A:0.05, C:0.07, G:0.18, T:0.70
Consensus pattern (21 bp):
TGTTTTGTTGCTATTTTTTAC
Found at i:27264305 original size:19 final size:21
Alignment explanation
Indices: 27264258--27264331 Score: 82
Period size: 22 Copynumber: 3.6 Consensus size: 21
27264248 TTGTTGCTGT
27264258 TTTTTTTACTGTTTTGGTTGC
1 TTTTTTTACTGTTTTGGTTGC
*
27264279 TATTTTTTACTGTTTTTG-TG-
1 T-TTTTTTACTGTTTTGGTTGC
*
27264299 TTTTTTTACTGTTTTGTTTG-
1 TTTTTTTACTGTTTTGGTTGC
* *
27264319 TTGTTTTAGTGTT
1 TTTTTTTACTGTT
27264332 GTTTAAGCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 14 0.30
20 14 0.30
21 3 0.07
22 15 0.33
ACGTcount: A:0.07, C:0.05, G:0.18, T:0.70
Consensus pattern (21 bp):
TTTTTTTACTGTTTTGGTTGC
Found at i:27264351 original size:32 final size:31
Alignment explanation
Indices: 27264289--27264355 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
27264279 TATTTTTTAC
* * *
27264289 TGTTTTTGTGTTTTTTTACTGTTTTGTTTGT
1 TGTTTTAGTGTTGTTTAACTGTTTTGTTTGT
27264320 TGTTTTAGTGTTGTTTAAGCTGTTATT-TTTGT
1 TGTTTTAGTGTTGTTTAA-CTGTT-TTGTTTGT
27264352 TGTT
1 TGTT
27264356 GTTTTGGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 15 0.48
32 14 0.45
33 2 0.06
ACGTcount: A:0.07, C:0.03, G:0.21, T:0.69
Consensus pattern (31 bp):
TGTTTTAGTGTTGTTTAACTGTTTTGTTTGT
Found at i:27264381 original size:32 final size:33
Alignment explanation
Indices: 27264345--27264424 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 33
27264335 TAAGCTGTTA
*
27264345 TTTTTGTTGTTGTTTTGGTTGCTATTTTT-T-TG
1 TTTTTGTTGTTGTTTTAG-TGCTATTTTTATGTG
*
27264377 TTTTTGTTGTTGTTTTAGTGTTATTTTTATGTG
1 TTTTTGTTGTTGTTTTAGTGCTATTTTTATGTG
* *
27264410 TTTTTATTATTGTTT
1 TTTTTGTTGTTGTTT
27264425 CACTGACTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 9 0.21
32 18 0.43
33 15 0.36
ACGTcount: A:0.07, C:0.01, G:0.19, T:0.72
Consensus pattern (33 bp):
TTTTTGTTGTTGTTTTAGTGCTATTTTTATGTG
Found at i:27264391 original size:12 final size:12
Alignment explanation
Indices: 27264310--27264392 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 12
27264300 TTTTTTACTG
27264310 TTTTGTTTGTTGT
1 TTTTG-TTGTTGT
*
27264323 TTTAG-TGTTGT
1 TTTTGTTGTTGT
** * *
27264334 TTAAGCTGTTAT
1 TTTTGTTGTTGT
27264346 TTTTGTTGTTG-
1 TTTTGTTGTTGT
27264357 TTTTG--GTTGCT
1 TTTTGTTGTTG-T
*
27264368 ATTT-TT-TTGT
1 TTTTGTTGTTGT
27264378 TTTTGTTGTTGT
1 TTTTGTTGTTGT
27264390 TTT
1 TTT
27264393 AGTGTTATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
9 4 0.07
10 4 0.07
11 23 0.43
12 19 0.35
13 4 0.07
ACGTcount: A:0.06, C:0.02, G:0.22, T:0.70
Consensus pattern (12 bp):
TTTTGTTGTTGT
Found at i:27267488 original size:2 final size:2
Alignment explanation
Indices: 27267481--27267516 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
27267471 CTTGATTTTC
* *
27267481 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27267517 GTAAATGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27269483 original size:21 final size:21
Alignment explanation
Indices: 27269442--27269484 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27269432 ACCCCAAACC
* *
27269442 CCCAAATATTTTTATTTTTCT
1 CCCAAATACTTTTATTCTTCT
27269463 CCCAAA-ACTTTTATTCCTTCT
1 CCCAAATACTTTTATT-CTTCT
27269484 C
1 C
27269485 ACTTTCTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (21 bp):
CCCAAATACTTTTATTCTTCT
Found at i:27269490 original size:29 final size:28
Alignment explanation
Indices: 27269458--27269512 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
27269448 TATTTTTATT
*
27269458 TTTCTCCCAAAACTTTTATTCCTTCTCAC
1 TTTCTCCCAAAACTTTTACT-CTTCTCAC
27269487 TTTCTCCCAAAACTTTTACTCTTCTC
1 TTTCTCCCAAAACTTTTACTCTTCTC
27269513 TCATCCCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTCTCCCAAAACTTTTACTCTTCTCAC
Found at i:27270293 original size:22 final size:22
Alignment explanation
Indices: 27270265--27270311 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
27270255 ATGACAGTGG
27270265 TTACAATGACCTAAAATTTTTT
1 TTACAATGACCTAAAATTTTTT
*
27270287 TTACAATGACCTAAAGTTTTTT
1 TTACAATGACCTAAAATTTTTT
27270309 TTA
1 TTA
27270312 AAAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (22 bp):
TTACAATGACCTAAAATTTTTT
Found at i:27272098 original size:18 final size:18
Alignment explanation
Indices: 27272075--27272112 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27272065 GCCAGTTTGG
27272075 TGGCTGCTGGAAACAAGA
1 TGGCTGCTGGAAACAAGA
27272093 TGGCTGCTGGAAACAAGA
1 TGGCTGCTGGAAACAAGA
27272111 TG
1 TG
27272113 TAAGAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.34, T:0.18
Consensus pattern (18 bp):
TGGCTGCTGGAAACAAGA
Found at i:27274432 original size:29 final size:30
Alignment explanation
Indices: 27274386--27274466 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
27274376 GAATTGGATC
* *
27274386 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATCAAAGTTT-ATGTATAAAATTACACAT
*
27274416 AAATCAAAGTTTATGTATACAATTACACATT
1 AAATCAAAGTTTATGTATAAAATTACACA-T
* *
27274447 AAATCATAGTTCATGTATAA
1 AAATCAAAGTTTATGTATAA
27274467 TTTTGAGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 15 0.35
30 11 0.26
31 17 0.40
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTTATGTATAAAATTACACAT
Found at i:27274463 original size:31 final size:29
Alignment explanation
Indices: 27274386--27274466 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
27274376 GAATTGGATC
* *
27274386 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATC-AAAGTTCATGTATAAAATTACACA
* *
27274416 AAATCAAAGTTTATGTATACAATTACACA
1 AAATCAAAGTTCATGTATAAAATTACACA
*
27274445 TTAAATCATAGTTCATGTATAA
1 --AAATCAAAGTTCATGTATAA
27274467 TTTTGAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 20 0.48
30 5 0.12
31 17 0.40
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTACACA
Found at i:27275181 original size:29 final size:30
Alignment explanation
Indices: 27275135--27275215 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
27275125 GAATTGGATC
*
27275135 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
27275165 AAATCAAAATTT-ATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* *
27275194 TTAAATC-ATAGTTCATGTATAA
1 --AAATCAAAATTTCATGTATAA
27275216 TTTTGAGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 15 0.35
30 16 0.37
31 12 0.28
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:27275212 original size:31 final size:29
Alignment explanation
Indices: 27275135--27275215 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
27275125 GAATTGGATC
*
27275135 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAA-TTCATGTATAAAATTACACA
* *
27275165 AAATCAAAATTTATGTATACAATTACACA
1 AAATCAAAATTCATGTATAAAATTACACA
* *
27275194 TTAAATCATAGTTCATGTATAA
1 --AAATCAAAATTCATGTATAA
27275216 TTTTGAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 9 0.21
31 16 0.38
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTACACA
Found at i:27275632 original size:749 final size:749
Alignment explanation
Indices: 27274170--27275669 Score: 2973
Period size: 749 Copynumber: 2.0 Consensus size: 749
27274160 ACTGTATACA
*
27274170 TAAATTTTAATTTGGTGTAATTATCCACATAAAACTCTAATTGTGGTTCAAATGTATACTTGAAA
1 TAAATTTTAATTTGGTGCAATTATCCACATAAAACTCTAATTGTGGTTCAAATGTATACTTGAAA
27274235 TTTTAATTTTGATTTAATCATTCACATTTAAAGAAATACATACATCAACTTATTTTTATATTGGA
66 TTTTAATTTTGATTTAATCATTCACATTTAAAGAAATACATACATCAACTTATTTTTATATTGGA
27274300 TAAACATAATTACTTATGTATGCAATATATCAACATAAAATGATGTTATATCAATAATTTTGTTA
131 TAAACATAATTACTTATGTATGCAATATATCAACATAAAATGATGTTATATCAATAATTTTGTTA
*
27274365 ATAATTTACAAGAATTGGATCAAATCAAAATTTCATGTATAAAATTGCACAAAATCAAAGTTTAT
196 ATAATTTACAAGAATTGGATCAAATCAAAATTTCATGTATAAAATTGCACAAAATCAAAATTTAT
27274430 GTATACAATTACACATTAAATCATAGTTCATGTATAATTTTGAGATTTATCCCTATAATCATAAT
261 GTATACAATTACACATTAAATCATAGTTCATGTATAATTTTGAGATTTATCCCTATAATCATAAT
27274495 TCAAAGTTGCGATTTTTAACTTATTTCGCTTTTAATCATTCATTTAATTTTTTTGTCTCTTTTTT
326 TCAAAGTTGCGATTTTTAACTTATTTCGCTTTTAATCATTCATTTAATTTTTTTGTCTCTTTTTT
27274560 TCTTGAACTTACGTTGTTTATCAAATAATTCAAAAATTAATGGAAAAGTTAATACATGTTAACTT
391 TCTTGAACTTACGTTGTTTATCAAATAATTCAAAAATTAATGGAAAAGTTAATACATGTTAACTT
27274625 TGCTTGCATATGCCATTTTAGCAATTAATTATTTTTTAAAATTTAAAAAATTATAAAATTACAAA
456 TGCTTGCATATGCCATTTTAGCAATTAATTATTTTTTAAAATTTAAAAAATTATAAAATTACAAA
27274690 AAAAAAAATTTATTTTTAAAAAAATGATTAATTGTTGATGCGACGTACATATAGATTGCCATGTG
521 AAAAAAAATTTATTTTTAAAAAAATGATTAATTGTTGATGCGACGTACATATAGATTGCCATGTG
27274755 GATGTCACATCATCAAAATCAACAGACATGACTTTTTTCATCTATTTTGAGGTGATTTGACAAAT
586 GATGTCACATCATCAAAATCAACAGACATGACTTTTTTCATCTATTTTGAGGTGATTTGACAAAT
27274820 AAAATAACTCTAAAAGCTAAAAGAAAGTGAAAAATTAAATAGAGAACTAAAACAAATTTTTTTTT
651 AAAATAACTCTAAAAGCTAAAAGAAAGTGAAAAATTAAATAGAGAACTAAAACAAATTTTTTTTT
27274885 TGTAAAGTTGAAATACTAAATAAATTATTATGCT
716 TGTAAAGTTGAAATACTAAATAAATTATTATGCT
27274919 TAAATTTTAATTTGGTGCAATTATCCACATAAAACTCTAATTGTGGTTCAAATGTATACTTGAAA
1 TAAATTTTAATTTGGTGCAATTATCCACATAAAACTCTAATTGTGGTTCAAATGTATACTTGAAA
27274984 TTTTAATTTTGATTTAATCATTCACATTTAAAGAAATACATACATCAACTTATTTTTATATTGGA
66 TTTTAATTTTGATTTAATCATTCACATTTAAAGAAATACATACATCAACTTATTTTTATATTGGA
27275049 TAAACATAATTACTTATGTATGCAATATATCAACATAAAATGATGTTATATCAATAATTTTGTTA
131 TAAACATAATTACTTATGTATGCAATATATCAACATAAAATGATGTTATATCAATAATTTTGTTA
27275114 ATAATTTACAAGAATTGGATCAAATCAAAATTTCATGTATAAAATTGCACAAAATCAAAATTTAT
196 ATAATTTACAAGAATTGGATCAAATCAAAATTTCATGTATAAAATTGCACAAAATCAAAATTTAT
27275179 GTATACAATTACACATTAAATCATAGTTCATGTATAATTTTGAGATTTATCCCTATAATCATAAT
261 GTATACAATTACACATTAAATCATAGTTCATGTATAATTTTGAGATTTATCCCTATAATCATAAT
27275244 TCAAAGTTGCGATTTTTAACTTATTTCGCTTTTAATCATTCATTTAATTTTTTTGTCTCTTTTTT
326 TCAAAGTTGCGATTTTTAACTTATTTCGCTTTTAATCATTCATTTAATTTTTTTGTCTCTTTTTT
27275309 TCTTGAACTTACGTTGTTTATCAAATAATTCAAAAATTAATGGAAAAGTTAATACATGTTAACTT
391 TCTTGAACTTACGTTGTTTATCAAATAATTCAAAAATTAATGGAAAAGTTAATACATGTTAACTT
27275374 TGCTTGCATATGCCATTTTAGCAATTAATTATTTTTTAAAATTTAAAAAATTATAAAATTACAAA
456 TGCTTGCATATGCCATTTTAGCAATTAATTATTTTTTAAAATTTAAAAAATTATAAAATTACAAA
27275439 AAAAAAAATTTATTTTTTAAAAAAATGATTAATTGTTGATGCGACGTACATATAGATTGCCATGT
521 AAAAAAAATTTA-TTTTTAAAAAAATGATTAATTGTTGATGCGACGTACATATAGATTGCCATGT
27275504 GGATGTCACATCATCAAAATCAACAGACATGACTTTTTTCATCTATTTTGAGGTGATTTGACAAA
585 GGATGTCACATCATCAAAATCAACAGACATGACTTTTTTCATCTATTTTGAGGTGATTTGACAAA
27275569 TAAAATAACTCTAAAAGCTAAAAGAAAGTGAAAAATTAAATAGAGAACTAAAACAAATTTTTTTT
650 TAAAATAACTCTAAAAGCTAAAAGAAAGTGAAAAATTAAATAGAGAACTAAAACAAATTTTTTTT
27275634 TTGTAAAGTTGAAATACTAAATAAATTATTATGCT
715 TTGTAAAGTTGAAATACTAAATAAATTATTATGCT
27275669 T
1 T
27275670 TTTTTGATAG
Statistics
Matches: 748, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
749 530 0.71
750 218 0.29
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.40
Consensus pattern (749 bp):
TAAATTTTAATTTGGTGCAATTATCCACATAAAACTCTAATTGTGGTTCAAATGTATACTTGAAA
TTTTAATTTTGATTTAATCATTCACATTTAAAGAAATACATACATCAACTTATTTTTATATTGGA
TAAACATAATTACTTATGTATGCAATATATCAACATAAAATGATGTTATATCAATAATTTTGTTA
ATAATTTACAAGAATTGGATCAAATCAAAATTTCATGTATAAAATTGCACAAAATCAAAATTTAT
GTATACAATTACACATTAAATCATAGTTCATGTATAATTTTGAGATTTATCCCTATAATCATAAT
TCAAAGTTGCGATTTTTAACTTATTTCGCTTTTAATCATTCATTTAATTTTTTTGTCTCTTTTTT
TCTTGAACTTACGTTGTTTATCAAATAATTCAAAAATTAATGGAAAAGTTAATACATGTTAACTT
TGCTTGCATATGCCATTTTAGCAATTAATTATTTTTTAAAATTTAAAAAATTATAAAATTACAAA
AAAAAAAATTTATTTTTAAAAAAATGATTAATTGTTGATGCGACGTACATATAGATTGCCATGTG
GATGTCACATCATCAAAATCAACAGACATGACTTTTTTCATCTATTTTGAGGTGATTTGACAAAT
AAAATAACTCTAAAAGCTAAAAGAAAGTGAAAAATTAAATAGAGAACTAAAACAAATTTTTTTTT
TGTAAAGTTGAAATACTAAATAAATTATTATGCT
Done.