Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 115 of 133
Found at i:22305104 original size:21 final size:21
Alignment explanation
Indices: 22305080--22305122 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22305070 CTTAGCTGGC
*
22305080 ATTATATGCCCAATTAACCTT
1 ATTATATGCCCAATGAACCTT
*
22305101 ATTATATGGCCAATGAACCTT
1 ATTATATGCCCAATGAACCTT
22305122 A
1 A
22305123 CATTAATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (21 bp):
ATTATATGCCCAATGAACCTT
Found at i:22307541 original size:25 final size:23
Alignment explanation
Indices: 22307513--22307713 Score: 73
Period size: 25 Copynumber: 8.4 Consensus size: 23
22307503 TAATGAGTAA
22307513 AATAATAATTAAAGATGAAAATAAT
1 AATAA-AATTAAA-ATGAAAATAAT
* * * *
22307538 AAT-AAGTAAAAATCTAAAAT-CT
1 AATAAAATTAAAAT-GAAAATAAT
22307560 -A-AAAA-TAAAATGAAAATAA-
1 AATAAAATTAAAATGAAAATAAT
*
22307579 AATAGAAAAAGTAAAAT-AAAATAAT
1 AAT---AAAATTAAAATGAAAATAAT
*
22307604 AATTAAAGATGAAAAT-AATAATAAT
1 AA-TAAA-ATTAAAATGAA-AATAAT
* *
22307629 AAGTAAAATCAAAAAATTAAAATGAA-
1 AA-TAAAAT--TAAAATGAAAAT-AAT
*
22307655 AATAAAA-TAAAGAAGTAAAATAA-
1 AATAAAATTAAA-ATG-AAAATAAT
*
22307678 AACAATAATTAAAGATGAAAATAAT
1 AATAA-AATTAAA-ATGAAAATAAT
22307703 AATAATAATTA
1 AATAA-AATTA
22307714 GTAAAAATAA
Statistics
Matches: 136, Mismatches: 18, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
19 5 0.04
20 6 0.04
21 3 0.02
22 6 0.04
23 20 0.15
24 36 0.26
25 45 0.33
26 11 0.08
27 4 0.03
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (23 bp):
AATAAAATTAAAATGAAAATAAT
Found at i:22307592 original size:80 final size:80
Alignment explanation
Indices: 22307508--22307766 Score: 239
Period size: 85 Copynumber: 3.1 Consensus size: 80
22307498 TAAAGTAATG
*
22307508 AGTAAAATAATAATTAAAGATGAAAATAATAATAAGTAAAAATCTAAAATCTAAAAATAAAATGA
1 AGTAAAATAATAATTAAAGATGAAAATAATAATAAGTAAAAATATAAAATCTAAAAATAAAATGA
22307573 AAATAAAATAGAAAA
66 AAATAAAATAGAAAA
* *
22307588 AGTAAAATAAAATAATAATTAAAGATGAAAATAATAATAA-T---AA-GTAAAATCAAAAAATTA
1 AG-----TAAAATAATAATTAAAGATGAAAATAATAATAAGTAAAAATATAAAATCTAAAAA-TA
22307648 AAATGAAAATAAAATAAAGAAGTAA
60 AAATGAAAATAAAAT--AGAA--AA
* * *
22307673 AATAAAACAATAATTAAAGATGAAAATAATAATAATAATTAGTAAAAATAAAATAAATCTAAAAA
1 AGTAAAATAATAATTAAAGATG--AA-AATAATAAT-A--AGTAAAAAT-ATA-AAATCTAAAAA
22307738 TAAAAT---AA-AAAATAGAAAA
58 TAAAATGAAAATAAAATAGAAAA
22307757 AGTAAAATAA
1 AGTAAAATAA
22307767 AATCAAAACA
Statistics
Matches: 147, Mismatches: 9, Indels: 42
0.74 0.05 0.21
Matches are distributed among these distances:
80 33 0.22
81 19 0.13
82 2 0.01
83 13 0.09
84 12 0.08
85 36 0.24
86 5 0.03
87 1 0.01
88 5 0.03
89 2 0.01
90 2 0.01
92 7 0.05
93 10 0.07
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (80 bp):
AGTAAAATAATAATTAAAGATGAAAATAATAATAAGTAAAAATATAAAATCTAAAAATAAAATGA
AAATAAAATAGAAAA
Found at i:22307605 original size:38 final size:41
Alignment explanation
Indices: 22307516--22307768 Score: 211
Period size: 42 Copynumber: 6.0 Consensus size: 41
22307506 TGAGTAAAAT
* **
22307516 AATAATTAAAGATGAAAATAATAATAAGTAAAAATCTAAAATCTA
1 AATAATTAAAGATGAAAATAATAAT-A--AAAAA-GTAAAATAAA
22307561 AA-AA-TAAA-ATGAAAATAA-AATAGAAAAAGTAAAATAAAA
1 AATAATTAAAGATGAAAATAATAATA-AAAAAGTAAAAT-AAA
* *
22307600 TAATAATTAAAGATGAAAATAATAAT-AATAAGTAAAATCAA
1 -AATAATTAAAGATGAAAATAATAATAAAAAAGTAAAATAAA
*
22307641 AA-AATTAAA-ATGAAAATAA-AATAAAGAAGTAAAATAAAA
1 AATAATTAAAGATGAAAATAATAATAAAAAAGTAAAAT-AAA
*
22307680 CAATAATTAAAGATGAAAATAATAATAATAATTAGTAAAA-ATAA
1 -AATAATTAAAGATGAAAATAATAATAA-AA-AAGTAAAATA-AA
* *
22307724 AATAAATCTAAAAAT-AAAATAAAAAATAGAAAAAGTAAAATAAA
1 AAT-AAT-TAAAGATGAAAAT-AATAATA-AAAAAGTAAAATAAA
22307768 A
1 A
22307769 TCAAAACAGA
Statistics
Matches: 175, Mismatches: 13, Indels: 41
0.76 0.06 0.18
Matches are distributed among these distances:
37 3 0.02
38 27 0.15
39 15 0.09
40 7 0.04
41 14 0.08
42 35 0.20
43 23 0.13
44 26 0.15
45 24 0.14
46 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (41 bp):
AATAATTAAAGATGAAAATAATAATAAAAAAGTAAAATAAA
Found at i:22307763 original size:6 final size:5
Alignment explanation
Indices: 22307561--22307774 Score: 96
Period size: 5 Copynumber: 38.8 Consensus size: 5
22307551 CTAAAATCTA
* *
22307561 AAAAT AAAAT GAAAAT AAAAT AGAA- AAAGT AAAAT AAAAT AATAATT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AA-T
* *
22307608 AAAGAT GAAAAT AATAAT AATAAGT AAAAT CAAA- AAATT AAAAT GAAAAT
1 AAA-AT -AAAAT AA-AAT AA-AA-T AAAAT AAAAT AAAAT AAAAT -AAAAT
*
22307658 AAAAT AAAGAAGT AAAAT AAAAC AATAATT AAAGAT GAAAAT AATAAT AATAAT
1 AAAAT -AA-AA-T AAAAT AAAAT AA-AA-T AAA-AT -AAAAT AA-AAT AA-AAT
* * *
22307712 -TAGT AAAAAT AAAAT AAATCT AAAAAT AAAAT AAAA- AATAGA- AAAAGT
1 AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAAT AAAAT AA-A-AT AAAA-T
22307760 AAAAT AAAAT CAAAA
1 AAAAT AAAAT -AAAA
22307775 CAGAAAATAG
Statistics
Matches: 166, Mismatches: 16, Indels: 53
0.71 0.07 0.23
Matches are distributed among these distances:
4 9 0.05
5 73 0.44
6 60 0.36
7 23 0.14
8 1 0.01
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:22308999 original size:65 final size:65
Alignment explanation
Indices: 22308874--22309030 Score: 163
Period size: 65 Copynumber: 2.4 Consensus size: 65
22308864 GAATAAACTC
* * * * * **
22308874 TAGGTCCAAAAAATAAAATGATCTAGAATGAATTGAGATTAAAAAGGGTGATTGGAATTGAATCG
1 TAGGTCCAAAAAATAAAATGATCTAGAATGAACTAAGATCAAAAAGAGTAATAAGAATTGAATCG
* * *
22308939 TAGGTCCAAAAAATAAAATGATCTAGATTGAGCTAAGATCAAAATGAGTAACTAAG-ATTGAATC
1 TAGGTCCAAAAAATAAAATGATCTAGAATGAACTAAGATCAAAAAGAGTAA-TAAGAATTGAATC
22309003 G
65 G
* ** * *
22309004 CAGGTTAAAAAAATAAACTTATCTAGA
1 TAGGTCCAAAAAATAAAATGATCTAGA
22309031 CTAACCCGAG
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 74 0.97
66 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.25
Consensus pattern (65 bp):
TAGGTCCAAAAAATAAAATGATCTAGAATGAACTAAGATCAAAAAGAGTAATAAGAATTGAATCG
Found at i:22313569 original size:21 final size:21
Alignment explanation
Indices: 22313517--22313575 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
22313507 CAAACTAAGC
22313517 CCAAATTAG-TTGGCACCCAAG
1 CCAAATTAGCTT-GCACCCAAG
* *
22313538 CCTAGATTAGCTTGTACCCAAG
1 CC-AAATTAGCTTGCACCCAAG
22313560 CCAAATTAGCTTGCAC
1 CCAAATTAGCTTGCAC
22313576 TTTAGCTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.44
22 16 0.50
23 2 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
CCAAATTAGCTTGCACCCAAG
Found at i:22313694 original size:23 final size:23
Alignment explanation
Indices: 22313662--22313714 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
22313652 CTAGCATAGT
* *
22313662 TGACATTTTAAACATAGTTTAGC
1 TGACACTTTAAACACAGTTTAGC
* *
22313685 TGACACTTTAAGCCCAGTTTAGC
1 TGACACTTTAAACACAGTTTAGC
22313708 TGACACT
1 TGACACT
22313715 CAAATCAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (23 bp):
TGACACTTTAAACACAGTTTAGC
Found at i:22314241 original size:22 final size:22
Alignment explanation
Indices: 22314214--22314290 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
22314204 TAACAAAATT
22314214 TTTAAGACCTCCAAGCATAAT-
1 TTTAAGACCTCCAAGCATAATC
* * *
22314235 TTCTAAGACTTTCAGGCATAATC
1 TT-TAAGACCTCCAAGCATAATC
*
22314258 TTTAAGATCC-CTAAGCATAATC
1 TTTAAGA-CCTCCAAGCATAATC
22314280 TTTAAGACCTC
1 TTTAAGACCTC
22314291 TACGTAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.09
22 38 0.84
23 3 0.07
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (22 bp):
TTTAAGACCTCCAAGCATAATC
Found at i:22314425 original size:81 final size:81
Alignment explanation
Indices: 22314297--22314453 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
22314287 CCTCTACGTA
* * * * * *
22314297 AAACATTTTAAATTTTTAAAGTTTCAAGGCCTTAAATTAGAGGAGCCTTCATACATGACAAGTTC
1 AAACATTTTAAATCTTTAAAGTTTCAAGACCTTAAATAAAAGAAGCCTTCATACATGACAAGATC
*
22314362 TTTAAGACCTCCGAGC
66 TCTAAGACCTCCGAGC
* * *
22314378 AAACATTTTAAATCTTTAAAGTTTCAAGATCTCT-AATAAAAGAAGCCTTCGTATATGACAAGAT
1 AAACATTTTAAATCTTTAAAGTTTCAAGACCT-TAAATAAAAGAAGCCTTCATACATGACAAGAT
22314442 CTCTAAGACCTC
65 CTCTAAGACCTC
22314454 TAGGCATAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 64 0.98
82 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (81 bp):
AAACATTTTAAATCTTTAAAGTTTCAAGACCTTAAATAAAAGAAGCCTTCATACATGACAAGATC
TCTAAGACCTCCGAGC
Found at i:22314543 original size:104 final size:103
Alignment explanation
Indices: 22314364--22314578 Score: 274
Period size: 104 Copynumber: 2.1 Consensus size: 103
22314354 ACAAGTTCTT
* *
22314364 TAAGACCTCCGAGCAAACATTTTAAATCTTTAAAGTTTCAAGATCTCTAATAAAAGAAGCCTTCG
1 TAAGACCTCCAAGCAAACATTTTAAATCTTTAAAGTTTCAAGATCTCTAATAAAAGAAGCCTTCA
* * *
22314429 TATATGACAAGATCTCTAAGACCTCTAGGCATAATCTC
66 TACATAACAAGATCTCTAAGACCTCTAGACATAATCTC
* * * * *
22314467 TAAGACCTCCAAGCAAAATATTTTAAAAT-TTTAAAGTTTCAAG-GCTTCTAATCTAATG-AGCT
1 TAAGACCTCCAAGC-AAACATTTT-AAATCTTTAAAGTTTCAAGATC-TCTAAT-AAAAGAAGCC
*
22314529 TTCATACATAACAAGATCTCTAAGACCTCTAGACATAATCTT
62 TTCATACATAACAAGATCTCTAAGACCTCTAGACATAATCTC
22314571 TAAGACCT
1 TAAGACCT
22314579 TTGGGCATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
103 14 0.14
104 76 0.78
105 7 0.07
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (103 bp):
TAAGACCTCCAAGCAAACATTTTAAATCTTTAAAGTTTCAAGATCTCTAATAAAAGAAGCCTTCA
TACATAACAAGATCTCTAAGACCTCTAGACATAATCTC
Found at i:22314596 original size:21 final size:22
Alignment explanation
Indices: 22314544--22314622 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
22314534 ACATAACAAG
* *
22314544 ATCTCTAAGACCTCTAGACATA
1 ATCTCTAAGACCTTTGGACATA
* *
22314566 ATCTTTAAGACCTTTGGGCATA
1 ATCTCTAAGACCTTTGGACATA
* *
22314588 ATCT-TAAGATCTTCGGACATA
1 ATCTCTAAGACCTTTGGACATA
22314609 ATCTCTAAGACCTT
1 ATCTCTAAGACCTT
22314623 CAAGCAAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 18 0.38
22 30 0.62
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCTCTAAGACCTTTGGACATA
Found at i:22314692 original size:147 final size:148
Alignment explanation
Indices: 22314440--22314743 Score: 362
Period size: 147 Copynumber: 2.1 Consensus size: 148
22314430 ATATGACAAG
* * *
22314440 ATCTCTAAGACCTCTAGG-CATAATCTCTAAGACCTCCAAGCAAAATATTTTAAAATTTTAAAGT
1 ATCTCTAAGATCT-TCGGACATAATCTCTAAGACCTCCAAGCAAAACATTTTAAAATTTTAAAGT
* * * * * * *
22314504 TTCAAGGCTTCTAATCTAATGAGCTTTCATACATAACAAGATCTCTAAGACCTCTAGACATAATC
65 TTCAAGGCCTCTAATCAAAGGAGATTTCAAAAATAACAAGATCTCTAAGACCTCCAGACATAATC
* * *
22314569 TTTAAGACCTTTGGGCATA
130 TCTAAAACCTTTGAGCATA
*
22314588 ATCT-TAAGATCTTCGGACATAATCTCTAAGACCTTCAAGCAAAACATTTT-AAATTTGTAAAGT
1 ATCTCTAAGATCTTCGGACATAATCTCTAAGACCTCCAAGCAAAACATTTTAAAATTT-TAAAGT
* *** * * **
22314651 TTCAAGGCCTCTGATCAAAGGAGATTTCAAAAATGTTAAGATTTGTAAGACCTCCAGGTATAATC
65 TTCAAGGCCTCTAATCAAAGGAGATTTCAAAAATAACAAGATCTCTAAGACCTCCAGACATAATC
22314716 TCTAAAACCTTTGAGCATA
130 TCTAAAACCTTTGAGCATA
*
22314735 GTCTCTAAG
1 ATCTCTAAG
22314744 TCCTCCAAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
146 9 0.07
147 113 0.87
148 8 0.06
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (148 bp):
ATCTCTAAGATCTTCGGACATAATCTCTAAGACCTCCAAGCAAAACATTTTAAAATTTTAAAGTT
TCAAGGCCTCTAATCAAAGGAGATTTCAAAAATAACAAGATCTCTAAGACCTCCAGACATAATCT
CTAAAACCTTTGAGCATA
Found at i:22314917 original size:14 final size:14
Alignment explanation
Indices: 22314899--22314959 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
22314889 ACTCAAAATC
22314899 ACAAAATCAAAAAA
1 ACAAAATCAAAAAA
* *
22314913 TCAAAATAAAAAAA
1 ACAAAATCAAAAAA
22314927 AC-AAATCAAGAAAA
1 ACAAAATCAA-AAAA
*
22314941 ACCAAAA--AAGAAA
1 A-CAAAATCAAAAAA
22314954 ACAAAA
1 ACAAAA
22314960 ACTTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
12 5 0.13
13 10 0.26
14 20 0.51
15 1 0.03
16 3 0.08
ACGTcount: A:0.77, C:0.13, G:0.03, T:0.07
Consensus pattern (14 bp):
ACAAAATCAAAAAA
Found at i:22314926 original size:22 final size:23
Alignment explanation
Indices: 22314884--22314931 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
22314874 TTAATTGATT
* * *
22314884 AAAAAACTCAAAATCACAAAATC
1 AAAAAACTCAAAATAAAAAAAAC
22314907 AAAAAA-TCAAAATAAAAAAAAC
1 AAAAAACTCAAAATAAAAAAAAC
22314929 AAA
1 AAA
22314932 TCAAGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.10
Consensus pattern (23 bp):
AAAAAACTCAAAATAAAAAAAAC
Found at i:22314932 original size:27 final size:27
Alignment explanation
Indices: 22314902--22314958 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
22314892 CAAAATCACA
*
22314902 AAATCAA-AAAATCAAAATAAAAAAAAC
1 AAATCAAGAAAAACAAAA-AAAAAAAAC
* *
22314929 AAATCAAGAAAAACCAAAAAAGAAAAC
1 AAATCAAGAAAAACAAAAAAAAAAAAC
22314956 AAA
1 AAA
22314959 AACTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.77, C:0.12, G:0.04, T:0.07
Consensus pattern (27 bp):
AAATCAAGAAAAACAAAAAAAAAAAAC
Found at i:22316492 original size:14 final size:15
Alignment explanation
Indices: 22316473--22316513 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
22316463 TAGGTAATAA
22316473 AGAAAAAAAAAGA-G
1 AGAAAAAAAAAGATG
*
22316487 AGAAAAAGAAAAGATT
1 AGAAAAA-AAAAGATG
22316503 A-AAAAAAAAAG
1 AGAAAAAAAAAG
22316514 TGATGAGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 11 0.46
16 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (15 bp):
AGAAAAAAAAAGATG
Found at i:22317412 original size:6 final size:6
Alignment explanation
Indices: 22317395--22317424 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
22317385 GAAAGTATTT
*
22317395 AGAAAA AAAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
22317425 GTTGAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:22320369 original size:22 final size:21
Alignment explanation
Indices: 22320344--22320391 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
22320334 ACAGAGAGAG
22320344 TAATATAATATCAAATTAGTGA
1 TAATATAATAT-AAATTAGTGA
* **
22320366 TAATTTTGTTATAAATTAGTGA
1 TAA-TATAATATAAATTAGTGA
22320388 TAAT
1 TAAT
22320392 TTAGACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
TAATATAATATAAATTAGTGA
Found at i:22320428 original size:22 final size:22
Alignment explanation
Indices: 22320403--22320446 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22320393 TAGACAAAAC
*
22320403 CAGTAATAACTTTATATTAAAT
1 CAGTAATAACTATATATTAAAT
*
22320425 CAGTGATAACTATATATTAAAT
1 CAGTAATAACTATATATTAAAT
22320447 TATGGATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (22 bp):
CAGTAATAACTATATATTAAAT
Found at i:22320454 original size:22 final size:22
Alignment explanation
Indices: 22320408--22320471 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
22320398 AAAACCAGTA
*
22320408 ATAACTTTATATTAAATCA-GTG
1 ATAAC-TTATATTAAATTATGTG
22320430 ATAACTATATATTAAATTATG-G
1 ATAACT-TATATTAAATTATGTG
*
22320452 ATAACTTATTTGTAAATTAT
1 ATAACTTATAT-TAAATTAT
22320472 TAATAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 5 0.14
22 31 0.84
23 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (22 bp):
ATAACTTATATTAAATTATGTG
Found at i:22320488 original size:22 final size:22
Alignment explanation
Indices: 22320463--22320642 Score: 93
Period size: 22 Copynumber: 8.3 Consensus size: 22
22320453 TAACTTATTT
*
22320463 GTAAATTATTAATAATATAATA
1 GTAAATAATTAATAATATAATA
* *
22320485 GTAAATAAATAATAATTTAATA
1 GTAAATAATTAATAATATAATA
* *
22320507 GTAAATAATTGATAAGATAGAT-
1 GTAAATAATTAATAATATA-ATA
** * * * *
22320529 GTATGTCACTGA-AACATAATA
1 GTAAATAATTAATAATATAATA
* * *
22320550 ATTAATACA-CAATAATATAATA
1 GTAAATA-ATTAATAATATAATA
*
22320572 GTAAATAATAAATAACT-TAATA
1 GTAAATAATTAATAA-TATAATA
* * * *
22320594 GTAAATCATTTAT-ACATAATT
1 GTAAATAATTAATAATATAATA
* *
22320615 GTAAATACA-TAAAAATATAGTA
1 GTAAATA-ATTAATAATATAATA
22320637 GTAAAT
1 GTAAAT
22320643 TAAGGATAGT
Statistics
Matches: 115, Mismatches: 34, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
20 2 0.02
21 22 0.19
22 88 0.77
23 3 0.03
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (22 bp):
GTAAATAATTAATAATATAATA
Found at i:22320694 original size:22 final size:21
Alignment explanation
Indices: 22320567--22320731 Score: 93
Period size: 22 Copynumber: 7.6 Consensus size: 21
22320557 CACAATAATA
22320567 TAATAGTAAATAATAAATAACT
1 TAATAGTAAATAAT-AATAACT
* * *
22320589 TAATAGTAAATCAT-TTATACA
1 TAATAGTAAATAATAATA-ACT
* *
22320610 TAATTGTAAATACATAA-AAAT
1 TAATAGTAAATA-ATAATAACT
* ** **
22320631 ATAGTAGTAAATTAAGGATAGTT
1 -TAATAGTAAA-TAATAATAACT
* *
22320654 TAATA-AAAATAAGTGATAACT
1 TAATAGTAAATAA-TAATAACT
22320675 TAATAGTAAATCAATAATAACT
1 TAATAGTAAAT-AATAATAACT
* * * *
22320697 TAGTAATAAATTAACAATAAGT
1 TAATAGTAAA-TAATAATAACT
22320719 TAATAGTAAATAA
1 TAATAGTAAATAA
22320732 GATTCATTTT
Statistics
Matches: 106, Mismatches: 27, Indels: 21
0.69 0.18 0.14
Matches are distributed among these distances:
20 5 0.05
21 29 0.27
22 65 0.61
23 7 0.07
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (21 bp):
TAATAGTAAATAATAATAACT
Found at i:22321207 original size:22 final size:22
Alignment explanation
Indices: 22321182--22321351 Score: 85
Period size: 22 Copynumber: 7.5 Consensus size: 22
22321172 TAAATTAGTG
*
22321182 ATAACTTAATAGTATATCAATA
1 ATAATTTAATAGTATATCAATA
* *
22321204 ATAATTTAATACTAAATAAT-AATTG
1 ATAATTTAATAGT--AT-ATCAA-TA
* ** * *
22321229 ATAACTTGTTAGTAAATTAATA
1 ATAATTTAATAGTATATCAATA
* * *
22321251 ATAATATAATAATAAATGC-ATA
1 ATAATTTAATAGTATAT-CAATA
* *
22321273 ATAATTTTATAGT-TAATCAGTA
1 ATAATTTAATAGTAT-ATCAATA
* * * *
22321295 ATAATTTAATATAGTAAATTAGTG
1 ATAATTT-A-ATAGTATATCAATA
*
22321319 ATAACTTAATAGTATATCAATA
1 ATAATTTAATAGTATATCAATA
22321341 ATAATTTAATA
1 ATAATTTAATA
22321352 CTAAATAATT
Statistics
Matches: 107, Mismatches: 30, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
21 1 0.01
22 70 0.65
23 4 0.04
24 20 0.19
25 12 0.11
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTATATCAATA
Found at i:22321252 original size:44 final size:43
Alignment explanation
Indices: 22321202--22321396 Score: 136
Period size: 44 Copynumber: 4.4 Consensus size: 43
22321192 AGTATATCAA
*
22321202 TAATAATTTAATACTAAATAATAATTGATAACTTGTTAGTAA-AT
1 TAATAATTTAATA-T-AATAATAATTGATAACTTTTTAGTAACAT
* * *
22321246 TAATAA--TAATATAATAATAAATGCATAATAATTTTATAGTTAATCAG
1 TAATAATTTAATATAATAATAATTG-AT-A-ACTTTT-TAG-TAA-CAT
* * * ** *
22321293 TAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCAA
1 TAATAATTTAATATAAT-AATAATTGATAACTTTTTAGTA-A-CAT
22321339 TAATAATTTAATACT-A-AATAATTGATAACTTTTTAGTAA-AT
1 TAATAATTTAATA-TAATAATAATTGATAACTTTTTAGTAACAT
22321380 TAATAA--TAATATAATAA
1 TAATAATTTAATATAATAA
22321397 ATGCACAATA
Statistics
Matches: 120, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
38 1 0.01
39 6 0.05
40 12 0.10
41 10 0.08
42 6 0.05
43 5 0.04
44 27 0.22
45 5 0.04
46 20 0.17
47 11 0.09
48 1 0.01
49 10 0.08
50 6 0.05
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (43 bp):
TAATAATTTAATATAATAATAATTGATAACTTTTTAGTAACAT
Found at i:22321301 original size:137 final size:131
Alignment explanation
Indices: 22321141--22321422 Score: 447
Period size: 137 Copynumber: 2.1 Consensus size: 131
22321131 CATTGAGAAA
* * *
22321141 TTAATAGTTAATTAGTGATAATTTAGTATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
1 TTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
22321206 AATTTAATACTAAATAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAAATGCA
66 AATTTAATACT--A-AATAATTGATAACTTGTTAGTAAATTAATAAT-A-AT-ATAATAAATGCA
*
22321271 TAATAAT
125 CAATAAT
*
22321278 TTTATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
1 TTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
*
22321343 AATTTAATACTAAATAATTGATAACTTTTTAGTAAATTAATAATAATATAATAAATGCACAATAA
66 AATTTAATACTAAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAAATGCACAATAA
22321408 T
131 T
*
22321409 TTAATAGTAAATCA
1 TTAATAGTTAATCA
22321423 ATTTAATAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
131 30 0.22
132 2 0.01
133 1 0.01
134 31 0.23
135 1 0.01
137 72 0.53
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (131 bp):
TTAATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
AATTTAATACTAAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAAATGCACAATAA
T
Found at i:22321388 original size:22 final size:21
Alignment explanation
Indices: 22321237--22321389 Score: 65
Period size: 22 Copynumber: 6.9 Consensus size: 21
22321227 TGATAACTTG
*
22321237 TTAGTAAATTAATAATAATATA
1 TTAGTAAATTAATAATAAT-TT
* * **
22321259 ATAATAAATGCATAATAATTT
1 TTAGTAAATTAATAATAATTT
* * *
22321280 TATAGTTAATCAGTAATAATTT
1 T-TAGTAAATTAATAATAATTT
* * *
22321302 AATATAGTAAATTAGTGATAACTTA
1 --T-TAGTAAATTAATAATAA-TTT
* * *
22321327 ATAGTATATCAATAATAATTT
1 TTAGTAAATTAATAATAATTT
* * *
22321348 AATACTAAA-TAATTGATAACTTT
1 -TTAGTAAATTAA-TAATAA-TTT
22321371 TTAGTAAATTAATAATAAT
1 TTAGTAAATTAATAATAAT
22321390 ATAATAAATG
Statistics
Matches: 95, Mismatches: 28, Indels: 17
0.68 0.20 0.12
Matches are distributed among these distances:
21 6 0.06
22 65 0.68
23 6 0.06
24 16 0.17
25 2 0.02
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.41
Consensus pattern (21 bp):
TTAGTAAATTAATAATAATTT
Found at i:22321419 original size:22 final size:22
Alignment explanation
Indices: 22321394--22321454 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
22321384 AATAATATAA
22321394 TAAATGCACAATAATTTAATAG
1 TAAATGCACAATAATTTAATAG
22321416 TAAAT---C---AATTTAATAG
1 TAAATGCACAATAATTTAATAG
*
22321432 TAAATGCATAATAATTTAATAG
1 TAAATGCACAATAATTTAATAG
22321454 T
1 T
22321455 TAATTATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
16 15 0.47
19 1 0.03
22 16 0.50
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATGCACAATAATTTAATAG
Found at i:22321425 original size:16 final size:16
Alignment explanation
Indices: 22321406--22321436 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22321396 AATGCACAAT
22321406 AATTTAATAGTAAATC
1 AATTTAATAGTAAATC
22321422 AATTTAATAGTAAAT
1 AATTTAATAGTAAAT
22321437 GCATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
AATTTAATAGTAAATC
Found at i:22321467 original size:22 final size:22
Alignment explanation
Indices: 22321442--22321547 Score: 65
Period size: 22 Copynumber: 4.9 Consensus size: 22
22321432 TAAATGCATA
22321442 ATAATTTAATAGTTAATTATTG
1 ATAATTTAATAGTTAATTATTG
* * * *
22321464 ATAATTTAGTAGTAAATCAATG
1 ATAATTTAATAGTTAATTATTG
* * * * *
22321486 AAAACTTAGTAG-TAAGTTACTA
1 ATAATTTAATAGTTAA-TTATTG
* *
22321508 ATAACTTAATAGTAAATCTATT-
1 ATAATTTAATAGTTAAT-TATTG
*
22321530 TTAATTTAATAG-TAATTA
1 ATAATTTAATAGTTAATTA
22321548 AATTATAAAC
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
20 2 0.03
21 5 0.08
22 52 0.81
23 5 0.08
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
ATAATTTAATAGTTAATTATTG
Found at i:22321471 original size:44 final size:43
Alignment explanation
Indices: 22321422--22321721 Score: 162
Period size: 44 Copynumber: 6.8 Consensus size: 43
22321412 ATAGTAAATC
* *
22321422 AATTTAATAGTAAATGCATAATAATTTAATAGTTAATTATTGAT
1 AATTTAGTAGTAAAT-CATAATAATTTAATAGTAAATTATTGAT
* * * * *
22321466 AATTTAGTAGTAAATCAATGAA-AACTTAGTAGTAAGTTACTAAT
1 AATTTAGTAGTAAATC-AT-AATAATTTAATAGTAAATTATTGAT
* * **
22321510 AACTTAATAGTAAATCTATTTTAATTTAATAGT-AATTAAATT-AT
1 AATTTAGTAGTAAATC-ATAATAATTTAATAGTAAATT--ATTGAT
* * * * *
22321554 AAACTTT-GTAGTAAATCATACATAACTTAGTAATAAATCAATGAT
1 -AA-TTTAGTAGTAAATCATA-ATAATTTAATAGTAAATTATTGAT
* * * * * *
22321599 AATTTAGTAGTTAATCACTAA-AATTCAGTAGCAAATCAATGAT
1 AATTTAGTAGTAAATCA-TAATAATTTAATAGTAAATTATTGAT
** * * * *
22321642 AACATAGTAGCAAATGCATAATAGTAT-ATAGTAAATTGTTGAT
1 AATTTAGTAGTAAAT-CATAATAATTTAATAGTAAATTATTGAT
* * * *
22321685 AATTTAATAGTAAATTATTGATAATTTAGTAGTAAAT
1 AATTTAGTAGTAAATCA-TAATAATTTAATAGTAAAT
22321722 CACTAATAAC
Statistics
Matches: 189, Mismatches: 51, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
42 1 0.01
43 67 0.35
44 88 0.47
45 28 0.15
46 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (43 bp):
AATTTAGTAGTAAATCATAATAATTTAATAGTAAATTATTGAT
Found at i:22321480 original size:123 final size:130
Alignment explanation
Indices: 22321141--22321511 Score: 366
Period size: 137 Copynumber: 2.8 Consensus size: 130
22321131 CATTGAGAAA
* * * * *
22321141 TTAATAGTTAATTAGTGATAATTTAGTATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
1 TTAATAGTTAA-CAGT-ACAATTTAATATAGTAAATCAGTAATAACTTAATAGTATATCAATAAT
*
22321206 AATTTAATACTAAATAATAATTGATAACTTGTTAGTAAATTAATAATAATATAATAATAAATGCA
64 AATTTAATACT--A-AATAATTGATAACTTATTAGTAAATTAATAAT-A-ATAATAATAAATGCA
*
22321271 TAATAAT
124 CAATAAT
* * * *
22321278 TTTATAGTTAATCAGTAATAATTTAATATAGTAAATTAGTGATAACTTAATAGTATATCAATAAT
1 TTAATAGTTAA-CAGT-ACAATTTAATATAGTAAATCAGTAATAACTTAATAGTATATCAATAAT
*
22321343 AATTTAATACTAAATAATTGATAACTTTTTAGTAAATTAATAATAAT-ATAATAAATGCACAATA
64 AATTTAATACTAAATAATTGATAACTTATTAGTAAATTAATAATAATAATAATAAATGCACAATA
22321407 AT
129 AT
* * * *
22321409 TTAATAG-TAA-A-T-CAATTT-A-ATAGTAAATGCA-TAATAATTTAATAGT-TAATTATTGAT
1 TTAATAGTTAACAGTACAATTTAATATAGTAAAT-CAGTAATAACTTAATAGTAT-ATCAATAAT
* * * * * *
22321466 AATTTAGTAGTAAATCAA-TGAAAACTTAGTAGTAAGTTACTAATAA
64 AATTTAATACTAAAT-AATTGATAACTTATTAGTAAATTAATAATAA
22321512 CTTAATAGTA
Statistics
Matches: 210, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
122 1 0.00
123 64 0.30
124 4 0.02
125 5 0.02
127 1 0.00
128 1 0.00
130 3 0.01
131 24 0.11
132 2 0.01
133 1 0.00
134 31 0.15
135 1 0.00
137 72 0.34
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (130 bp):
TTAATAGTTAACAGTACAATTTAATATAGTAAATCAGTAATAACTTAATAGTATATCAATAATAA
TTTAATACTAAATAATTGATAACTTATTAGTAAATTAATAATAATAATAATAAATGCACAATAAT
Found at i:22321600 original size:22 final size:22
Alignment explanation
Indices: 22321462--22321780 Score: 141
Period size: 22 Copynumber: 14.5 Consensus size: 22
22321452 AGTTAATTAT
*
22321462 TGATAATTTAGTAGTAAATCAA
1 TGATAACTTAGTAGTAAATCAA
* * * *
22321484 TGAAAACTTAGTAGTAAGTTAC
1 TGATAACTTAGTAGTAAATCAA
* * *
22321506 TAATAACTTAATAGTAAATCTA
1 TGATAACTTAGTAGTAAATCAA
** * * * *
22321528 TTTTAATTTAATAGTAATTAAA
1 TGATAACTTAGTAGTAAATCAA
* *
22321550 TTATAAACTTTGTAGTAAATC-A
1 TGAT-AACTTAGTAGTAAATCAA
* *
22321572 TACATAACTTAGTAATAAATCAA
1 T-GATAACTTAGTAGTAAATCAA
* * *
22321595 TGATAATTTAGTAGTTAATCAC
1 TGATAACTTAGTAGTAAATCAA
* *
22321617 T-A-AAATTCAGTAGCAAATCAA
1 TGATAACTT-AGTAGTAAATCAA
* *
22321638 TGATAACATAGTAGCAAATGC-A
1 TGATAACTTAGTAGTAAAT-CAA
* * ***
22321660 TAAT-AGTATA-TAGTAAATTGT
1 TGATAACT-TAGTAGTAAATCAA
* * * *
22321681 TGATAATTTAATAGTAAATTAT
1 TGATAACTTAGTAGTAAATCAA
* *
22321703 TGATAATTTAGTAGTAAATCAC
1 TGATAACTTAGTAGTAAATCAA
* * *
22321725 TAATAACATCA-TAGTAAATCAT
1 TGATAAC-TTAGTAGTAAATCAA
* *
22321747 TGATAACTTAGCTA-TAAATTAG
1 TGATAACTTAG-TAGTAAATCAA
*
22321769 TGATAATTTAGT
1 TGATAACTTAGT
22321781 TATAATTTAA
Statistics
Matches: 224, Mismatches: 59, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
20 4 0.02
21 28 0.12
22 169 0.75
23 23 0.10
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (22 bp):
TGATAACTTAGTAGTAAATCAA
Found at i:22321602 original size:67 final size:66
Alignment explanation
Indices: 22321429--22321609 Score: 168
Period size: 66 Copynumber: 2.7 Consensus size: 66
22321419 ATCAATTTAA
* * * * * *
22321429 TAGTAAATGCA-TAATAATTTAATAGTTAATTATTGATAATTTAGTAGTAAATCAATGAAAACTT
1 TAGTAAAT-CACTAATAACTTAATAATAAATCAATGATAATTTAGTAGTAAATAAATGAAAACTT
22321493 AG
65 AG
* * * * ** * * *
22321495 TAGTAAGTTACTAATAACTTAATAGTAAATCTATTTTAATTTAATAGTAATTAAATTATAAACTT
1 TAGTAAATCACTAATAACTTAATAATAAATCAATGATAATTTAGTAGTAAATAAATGA-AAACTT
*
22321560 TG
65 AG
*
22321562 TAGTAAATCA-TACATAACTTAGTAATAAATCAATGATAATTTAGTAGT
1 TAGTAAATCACTA-ATAACTTAATAATAAATCAATGATAATTTAGTAGT
22321610 TAATCACTAA
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
65 1 0.01
66 45 0.50
67 44 0.49
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (66 bp):
TAGTAAATCACTAATAACTTAATAATAAATCAATGATAATTTAGTAGTAAATAAATGAAAACTTA
G
Found at i:22321774 original size:11 final size:11
Alignment explanation
Indices: 22321747--22321800 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
22321737 AGTAAATCAT
*
22321747 TGATAACTTAG
1 TGATAATTTAG
*
22321758 CT-ATAAATTAG
1 -TGATAATTTAG
22321769 TGATAATTTAG
1 TGATAATTTAG
* *
22321780 TTATAATTTAA
1 TGATAATTTAG
22321791 TGATAATTTA
1 TGATAATTTA
22321801 ATTGTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 1 0.03
11 34 0.94
12 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (11 bp):
TGATAATTTAG
Found at i:22321784 original size:22 final size:22
Alignment explanation
Indices: 22321747--22321813 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
22321737 AGTAAATCAT
* *
22321747 TGATAACTTAGCTATAAATTAG
1 TGATAATTTAGTTATAAATTAG
* *
22321769 TGATAATTTAGTTATAATTTAA
1 TGATAATTTAGTTATAAATTAG
* *
22321791 TGATAATTTAATTGTAAATTAG
1 TGATAATTTAGTTATAAATTAG
22321813 T
1 T
22321814 TAATTATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (22 bp):
TGATAATTTAGTTATAAATTAG
Found at i:22321835 original size:22 final size:22
Alignment explanation
Indices: 22321810--22321908 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
22321800 AATTGTAAAT
*
22321810 TAGTTAATTATTAATAACTTCA
1 TAGTAAATTATTAATAACTTCA
* * *
22321832 TAGTAAATCATCAAAAACTTCA
1 TAGTAAATTATTAATAACTTCA
* *
22321854 TAGTAAATTAGTAATAACTTTA
1 TAGTAAATTATTAATAACTTCA
* * *
22321876 TAATAAATTATCT-ACAACTTAA
1 TAGTAAATTAT-TAATAACTTCA
*
22321898 TAATAAATTAT
1 TAGTAAATTAT
22321909 CATTAATTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
22 62 0.98
23 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTCA
Found at i:22321883 original size:44 final size:44
Alignment explanation
Indices: 22321810--22321907 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
22321800 AATTGTAAAT
* * * *
22321810 TAGTTAATTATTAATAACTTCATAGTAAATCATCAAAAACTTCA
1 TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
* * * *
22321854 TAGTAAATTAGTAATAACTTTATAATAAATTATCTACAACTTAA
1 TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
*
22321898 TAATAAATTA
1 TAGTAAATTA
22321908 TCATTAATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (44 bp):
TAGTAAATTAGTAATAACTTCATAATAAATCATCAAAAACTTAA
Found at i:22321926 original size:22 final size:22
Alignment explanation
Indices: 22321901--22321992 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
22321891 AACTTAATAA
22321901 TAAATT-ATCATTAATTTAGTAG
1 TAAATTAATCA-TAATTTAGTAG
** *
22321923 TAAATTGTTCA-AATTTAATAG
1 TAAATTAATCATAATTTAGTAG
* * *
22321944 TAAA-TCATCTATAACTTAGTAA
1 TAAATTAATC-ATAATTTAGTAG
* *
22321966 TAAATTAATGATAATTTAGTTG
1 TAAATTAATCATAATTTAGTAG
22321988 TAAAT
1 TAAAT
22321993 CAGTGATAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.06
21 14 0.26
22 31 0.57
23 6 0.11
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
TAAATTAATCATAATTTAGTAG
Found at i:22322317 original size:22 final size:22
Alignment explanation
Indices: 22322247--22322321 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
22322237 TAATTTATTG
* * * *
22322247 ATAAATTAATAGTAAATCATAA
1 ATAACTTAGTAGTAAATAATTA
* * *
22322269 ATAACTTAGTATTAATTCAATTG
1 ATAACTTAGTAGTAAAT-AATTA
22322292 ATAACTTAGTAGTAAATAATTA
1 ATAACTTAGTAGTAAATAATTA
22322314 ATAACTTA
1 ATAACTTA
22322322 ATAGCTAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
22 25 0.60
23 17 0.40
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTA
Found at i:22322509 original size:22 final size:22
Alignment explanation
Indices: 22322484--22322552 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
22322474 TAAATGAATT
* **
22322484 AATCATTGATAATTTTGTAGTA
1 AATCTTTGATAATTTAATAGTA
* *
22322506 AATCTTTCATAACTTAATAGTA
1 AATCTTTGATAATTTAATAGTA
*
22322528 AATCTTTGATAATTTAATAATA
1 AATCTTTGATAATTTAATAGTA
22322550 AAT
1 AAT
22322553 TACTGATAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
AATCTTTGATAATTTAATAGTA
Found at i:22322559 original size:22 final size:22
Alignment explanation
Indices: 22322542--22322584 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22322532 TTTGATAATT
22322542 TAATAATAAATTACTGATAACA
1 TAATAATAAATTACTGATAACA
**
22322564 TAATAATAAATTTGTGATAAC
1 TAATAATAAATTACTGATAAC
22322585 TTAGTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
TAATAATAAATTACTGATAACA
Found at i:22322741 original size:22 final size:22
Alignment explanation
Indices: 22322709--22322759 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
22322699 TCAAATTTAT
22322709 TGATAACTTAATGATAAATCAG
1 TGATAACTTAATGATAAATCAG
* * * *
22322731 TTATAATTTAATTATAAATTAG
1 TGATAACTTAATGATAAATCAG
22322753 TGATAAC
1 TGATAAC
22322760 AATAAATTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (22 bp):
TGATAACTTAATGATAAATCAG
Found at i:22322766 original size:17 final size:17
Alignment explanation
Indices: 22322744--22322776 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22322734 TAATTTAATT
*
22322744 ATAAATTAGTGATAACA
1 ATAAATTAATGATAACA
22322761 ATAAATTAATGATAAC
1 ATAAATTAATGATAAC
22322777 TTATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (17 bp):
ATAAATTAATGATAACA
Found at i:22327894 original size:27 final size:27
Alignment explanation
Indices: 22327864--22327919 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
22327854 ATTTTGGAAG
*
22327864 TATGAAAAATAACAAAGGCAAAATTCA
1 TATGAAAAATAACAAAAGCAAAATTCA
22327891 TATGAAAAATAACAAAAGCAAAATTCA
1 TATGAAAAATAACAAAAGCAAAATTCA
22327918 TA
1 TA
22327920 CTCTGAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (27 bp):
TATGAAAAATAACAAAAGCAAAATTCA
Found at i:22329150 original size:181 final size:184
Alignment explanation
Indices: 22328843--22329208 Score: 641
Period size: 181 Copynumber: 2.0 Consensus size: 184
22328833 ACTTCATGCA
*
22328843 ACAATTCAATGCTAGGCCCAATATTTTATTGTTAGGGCCCCCAATTTCAATCAATGGATCAAATA
1 ACAATTCAATGCTAGGCCCAATATTTTATTGTTAGGG-CCCCAAATTCAATCAATGGATCAAATA
*
22328908 AGTATCAAAGGGCTTTCTTTGAGCCCTATTCAAAACTTATATTTATAAATTTTCTTTTTCTTTTC
65 AGTATAAAAGGGCTTTCTTTGAGCCCTATTCAAAACTTATATTTATAAATTTTCTTTTTCTTTTC
22328973 TTTCT-TTTTTTTTTAATTTTTTTATTATAATACTACAATAAAAAGTCAACGGTC
130 TTTCTCTTTTTTTTTAATTTTTTTATTATAATACTACAATAAAAAGTCAACGGTC
22329027 ACAATTCAATGCTAGGCCCAATA-TTTATTGTTA-GG-CCCAAATTCAATCAATGGATCAAATAA
1 ACAATTCAATGCTAGGCCCAATATTTTATTGTTAGGGCCCCAAATTCAATCAATGGATCAAATAA
*
22329089 GTATAAAAGGGCTTTCTCTTGAGCCCTATTCAAAACTTATATTTATAAATTTTCTTTTTCTTTTT
66 GTATAAAAGGGCTTTCT-TTGAGCCCTATTCAAAACTTATATTTATAAATTTTCTTTTTCTTTTC
* *
22329154 TTTTTCTTTTTTTTTAATTTTTTTATTATAATACTACAATAAAAAGTCAATGGTC
130 TTTCTCTTTTTTTTTAATTTTTTTATTATAATACTACAATAAAAAGTCAACGGTC
22329209 TTATTATCTA
Statistics
Matches: 175, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
180 42 0.24
181 50 0.29
182 50 0.29
183 10 0.06
184 23 0.13
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (184 bp):
ACAATTCAATGCTAGGCCCAATATTTTATTGTTAGGGCCCCAAATTCAATCAATGGATCAAATAA
GTATAAAAGGGCTTTCTTTGAGCCCTATTCAAAACTTATATTTATAAATTTTCTTTTTCTTTTCT
TTCTCTTTTTTTTTAATTTTTTTATTATAATACTACAATAAAAAGTCAACGGTC
Found at i:22329157 original size:11 final size:11
Alignment explanation
Indices: 22329138--22329168 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22329128 TATTTATAAA
*
22329138 TTTTCTTTTTC
1 TTTTTTTTTTC
22329149 TTTTTTTTTTC
1 TTTTTTTTTTC
22329160 TTTTTTTTT
1 TTTTTTTTT
22329169 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:22329174 original size:17 final size:17
Alignment explanation
Indices: 22329138--22329175 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22329128 TATTTATAAA
*
22329138 TTTTCTTTTTCTTTTTT
1 TTTTCTTTTTCTTTTAT
22329155 TTTTCTTTTT-TTTTAAT
1 TTTTCTTTTTCTTTT-AT
22329172 TTTT
1 TTTT
22329176 TTATTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTAT
Found at i:22329370 original size:2 final size:2
Alignment explanation
Indices: 22329363--22329387 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22329353 TTGATTACAC
22329363 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22329388 TGAAGGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22333982 original size:16 final size:14
Alignment explanation
Indices: 22333947--22333988 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
22333937 TATTTCTTTT
22333947 TACAAAAAAAAAAA
1 TACAAAAAAAAAAA
*
22333961 TGCAAAAAAGAAAGAA
1 TACAAAAAA-AAA-AA
22333977 TACAAAAAAAAA
1 TACAAAAAAAAA
22333989 TTTCAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 6 0.25
16 10 0.42
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
TACAAAAAAAAAAA
Found at i:22334407 original size:59 final size:60
Alignment explanation
Indices: 22334315--22334444 Score: 183
Period size: 59 Copynumber: 2.2 Consensus size: 60
22334305 TCTAGTCTTC
* ** *
22334315 TAGTTTTTCAAATTCCCATAGCCTTCCTTCATTTTTTATCAATTTTTCATCATTTGTT-T
1 TAGTTTTTAAAATTCCCATAGCCTTCCACCATTTTTTATCAAATTTTCATCATTTGTTCT
* *
22334374 TAGTTTTTAAAATTCCCATCGCCTTCCACCATTTTTTATCAAATTTTCTTCATTTGTTCT
1 TAGTTTTTAAAATTCCCATAGCCTTCCACCATTTTTTATCAAATTTTCATCATTTGTTCT
22334434 T-GTTCTTTAAA
1 TAGTT-TTTAAA
22334445 TACCTATAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 55 0.87
60 8 0.13
ACGTcount: A:0.22, C:0.21, G:0.05, T:0.52
Consensus pattern (60 bp):
TAGTTTTTAAAATTCCCATAGCCTTCCACCATTTTTTATCAAATTTTCATCATTTGTTCT
Found at i:22337244 original size:20 final size:20
Alignment explanation
Indices: 22337219--22337263 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
22337209 AAAAGAGGTC
22337219 AATTTTGAAAATTCATTTTG
1 AATTTTGAAAATTCATTTTG
22337239 AATTTTGAAAATTCATTTTG
1 AATTTTGAAAATTCATTTTG
22337259 AATTT
1 AATTT
22337264 CAAAAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (20 bp):
AATTTTGAAAATTCATTTTG
Found at i:22337269 original size:20 final size:20
Alignment explanation
Indices: 22337226--22337271 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
22337216 GTCAATTTTG
**
22337226 AAAATTCATTTTGAATTTTG
1 AAAATTCATTTTGAATTTCA
22337246 AAAATTCATTTTGAATTTCA
1 AAAATTCATTTTGAATTTCA
22337266 AAAATT
1 AAAATT
22337272 AGGTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (20 bp):
AAAATTCATTTTGAATTTCA
Found at i:22338456 original size:125 final size:125
Alignment explanation
Indices: 22338046--22338513 Score: 462
Period size: 125 Copynumber: 3.7 Consensus size: 125
22338036 AAGTCCATCT
* * * * * *
22338046 CAAAAAATGAATGAAGCTTCAATTAGAATCTCAAGTAAAAAAAAAAAGATAAAATTCAATAAAGT
1 CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGT-AAAAAAAGAAGATAGAATTCAAGAAAGT
* * * ** * *
22338111 AGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATGCATCTCATTGATTAGAGTCTGGAG
65 AGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATTCACCTTAGAGATGAGAATCTGGAG
* * ** *
22338172 CAAAAAGTGAATAAAGCTTTAGTTAGAATTTCAAGTAAAAGAAGAAGATAGAATTCAAGAAA-TA
1 CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAGAAGATAGAATTCAAGAAAGT-
* * * * * *
22338236 ATAATGCCAAAGTTGAAGA--AAAGAGCATAGAAAGAAAGATATACACC-TCGAACATGAGAATA
65 AGAATGCTAAAGTTGAA-ATCAAAGA--A-AG-AA-AAACAT-T-CACCTTAG-AGATGAGAATC
22338298 TAGG-G
121 T-GGAG
*
22338303 CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAGAATATAGAATTCAAGAAAGTA
1 CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAGAAGATAGAATTCAAGAAAGTA
* * *
22338368 GAATGTTAAAGTTGAAATCAAAGAAAGAAAAACATTCACCTTAGAGATGAGATTCTGGAA
66 GAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATTCACCTTAGAGATGAGAATCTGGAG
* * * * *
22338428 CAAAAAGTGAATAAAGCTTCAGTAAGAATTCCAAGTAAAAAAAGAAAATAGAATTCAAGAAA-AA
1 CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAGAAGATAGAATTCAAGAAAGTA
* * *
22338492 AAATGCTAAAGTAGAAGTCAAA
66 GAATGCTAAAGTTGAAATCAAA
22338514 TATTTCCAAA
Statistics
Matches: 280, Mismatches: 46, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
124 27 0.10
125 108 0.39
126 36 0.13
127 7 0.03
128 4 0.01
129 7 0.03
130 2 0.01
131 81 0.29
132 8 0.03
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.21
Consensus pattern (125 bp):
CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAGAAGATAGAATTCAAGAAAGTA
GAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATTCACCTTAGAGATGAGAATCTGGAG
Found at i:22338465 original size:256 final size:256
Alignment explanation
Indices: 22338046--22338508 Score: 694
Period size: 256 Copynumber: 1.8 Consensus size: 256
22338036 AAGTCCATCT
* * *
22338046 CAAAAAATGAATGAAGCTTCAATTAGAATCTCAAGTAAAAAAAAAAAGATAAAATTCAATAAAGT
1 CAAAAAATGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAAAAAGATAAAATTCAAGAAAGT
* ** * *
22338111 AGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATGCATCTCATTGATTAGAGTCTGGAGCAAA
66 AGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATGCACCTCAGAGATGAGAGTCTGGAACAAA
* * * * * *
22338176 AAGTGAATAAAGCTTTAGTTAGAATTTCAAGTAAAAGAAGAAGATAGAATTCAAGAAATAATAAT
131 AAGTGAATAAAGCTTCAGTAAGAATTCCAAGTAAAAAAAGAAAATAGAATTCAAGAAA-AAAAAT
*
22338241 GCCAAAGTTGAAGAAAAGAGCATAGAAAGAAAGATATACACCTCGAACATGAGAATATAGGG
195 GCCAAAGTAGAAGAAAAGAGCATAGAAAGAAAGATATACACCTCGAACATGAGAATATAGGG
* * * *
22338303 CAAAAAGTGAATAAAGCTTCAATTAGAATCCCAAGT-AAAAAAAGAATATAGAATTCAAGAAAGT
1 CAAAAAATGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAAAAAGATAAAATTCAAGAAAGT
* * * *
22338367 AGAATGTTAAAGTTGAAATCAAAGAAAGAAAAACATTCACCTTAGAGATGAGATTCTGGAACAAA
66 AGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATGCACCTCAGAGATGAGAGTCTGGAACAAA
22338432 AAGTGAATAAAGCTTCAGTAAGAATTCCAAGTAAAAAAAGAAAATAGAATTCAAGAAAAAAAATG
131 AAGTGAATAAAGCTTCAGTAAGAATTCCAAGTAAAAAAAGAAAATAGAATTCAAGAAAAAAAATG
*
22338497 CTAAAGTAGAAG
196 CCAAAGTAGAAG
22338509 TCAAATATTT
Statistics
Matches: 182, Mismatches: 24, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
255 16 0.09
256 133 0.73
257 33 0.18
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (256 bp):
CAAAAAATGAATAAAGCTTCAATTAGAATCCCAAGTAAAAAAAAAAAGATAAAATTCAAGAAAGT
AGAATGCTAAAGTTGAAATCAAAGAAAGAAAAACATGCACCTCAGAGATGAGAGTCTGGAACAAA
AAGTGAATAAAGCTTCAGTAAGAATTCCAAGTAAAAAAAGAAAATAGAATTCAAGAAAAAAAATG
CCAAAGTAGAAGAAAAGAGCATAGAAAGAAAGATATACACCTCGAACATGAGAATATAGGG
Found at i:22339729 original size:85 final size:85
Alignment explanation
Indices: 22339427--22339734 Score: 291
Period size: 86 Copynumber: 3.6 Consensus size: 85
22339417 AGGAATCTTC
* * * * * * * * *
22339427 GCATTTGCATAACTTGCATTCACA-TTCACATTTACATCATGA-AAAAGACATTTGATCTACATG
1 GCATTTGCATCACTTGCATTCGCACTT-ACATGTGCATCATGAGAAAA-ACATCTAATTTGCAAG
* *
22339490 CTGCAAAAATAAAAAAGATATT
64 CTACAAAAACAAAAAAGATATT
* * * * *
22339512 -CATATTTGCATCACTTGCATTCGCACTAACATGTGCATCATGAGAAAGACGTTTAATTTGCATG
1 GC--ATTTGCATCACTTGCATTCGCACTTACATGTGCATCATGAGAAAAACATCTAATTTGCAAG
** * * *
22339576 CTGTAAAAACAAAAAAAAAAATC
64 CTACAAAAAC-AAAAAAGATATT
* * * *
22339599 GCATTTGCACCACATGCATTCGCACTTACATGTGCATCATAAGAAAAACATCTAATTTGTAAGCT
1 GCATTTGCATCACTTGCATTCGCACTTACATGTGCATCATGAGAAAAACATCTAATTTGCAAGCT
*
22339664 ACAAAAACAAAAATGATATT
66 ACAAAAACAAAAAAGATATT
*
22339684 GCATTTGCATCACTTGCATTCAG-ACTTGCATGTGCATCATGAGAAAAACAT
1 GCATTTGCATCACTTGCATTC-GCACTTACATGTGCATCATGAGAAAAACAT
22339735 TTGCATTCAC
Statistics
Matches: 182, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
84 1 0.01
85 53 0.29
86 114 0.63
87 13 0.07
88 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (85 bp):
GCATTTGCATCACTTGCATTCGCACTTACATGTGCATCATGAGAAAAACATCTAATTTGCAAGCT
ACAAAAACAAAAAAGATATT
Found at i:22340592 original size:23 final size:23
Alignment explanation
Indices: 22340559--22340610 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
22340549 AACTAAGCCC
* * *
22340559 AGATTAGTTAATACTTTAAACCT
1 AGATTAATTAACACCTTAAACCT
*
22340582 AGATTAATTAACACCTTAAGCCT
1 AGATTAATTAACACCTTAAACCT
22340605 AGATTA
1 AGATTA
22340611 GTTAGCATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (23 bp):
AGATTAATTAACACCTTAAACCT
Found at i:22340879 original size:41 final size:41
Alignment explanation
Indices: 22340808--22340893 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
22340798 ATTTGTAAGT
* * *
22340808 CCTCCGAGCAAAATTTTAGATTTCTTAATGATTGCAAAAGA
1 CCTCCGAGCAAAATTTTAAATTTATGAATGATTGCAAAAGA
* * *
22340849 CCTCTGAGCAAAATTTTAAATTTATGAATGATTTCTAAAGA
1 CCTCCGAGCAAAATTTTAAATTTATGAATGATTGCAAAAGA
22340890 CCTC
1 CCTC
22340894 AAGGTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (41 bp):
CCTCCGAGCAAAATTTTAAATTTATGAATGATTGCAAAAGA
Found at i:22341074 original size:22 final size:22
Alignment explanation
Indices: 22341040--22341137 Score: 115
Period size: 22 Copynumber: 4.5 Consensus size: 22
22341030 ACATGACAAG
*
22341040 ATCTTTAAGACCTCCAAGCATA
1 ATCTCTAAGACCTCCAAGCATA
*
22341062 ATCTCTAAAACCTCCAAGCATA
1 ATCTCTAAGACCTCCAAGCATA
* * * *
22341084 ATCTTTAAGATCTCTAGGCATA
1 ATCTCTAAGACCTCCAAGCATA
* *
22341106 ATCTCTAATACCTCCAAACATA
1 ATCTCTAAGACCTCCAAGCATA
*
22341128 ATCTTTAAGA
1 ATCTCTAAGA
22341138 TTTTTTAGTA
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.30
Consensus pattern (22 bp):
ATCTCTAAGACCTCCAAGCATA
Found at i:22341153 original size:44 final size:44
Alignment explanation
Indices: 22341040--22341138 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 44
22341030 ACATGACAAG
* * * *
22341040 ATCTTTAAGACCTCCAAGCATAATCTCTAAAACCTCCAAGCATA
1 ATCTTTAAGATCTCTAGGCATAATCTCTAAAACCTCCAAACATA
*
22341084 ATCTTTAAGATCTCTAGGCATAATCTCTAATACCTCCAAACATA
1 ATCTTTAAGATCTCTAGGCATAATCTCTAAAACCTCCAAACATA
22341128 ATCTTTAAGAT
1 ATCTTTAAGAT
22341139 TTTTTAGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.30
Consensus pattern (44 bp):
ATCTTTAAGATCTCTAGGCATAATCTCTAAAACCTCCAAACATA
Found at i:22341309 original size:37 final size:37
Alignment explanation
Indices: 22341269--22341356 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
22341259 AAAATTAAAA
22341269 AAAAAAGTTAAAAAAG-TTTTTTTTTTTACTTTTTAG
1 AAAAAAGTTAAAAAAGTTTTTTTTTTTTACTTTTTAG
22341305 AAAAAAGTTAAAAAAGTTTTTTTTTTTTACTTTTTAG
1 AAAAAAGTTAAAAAAGTTTTTTTTTTTTACTTTTTAG
22341342 AAAAAAGTTAAAAAA
1 AAAAAAGTTAAAAAA
22341357 AAAGAGTTAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 16 0.31
37 35 0.69
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (37 bp):
AAAAAAGTTAAAAAAGTTTTTTTTTTTTACTTTTTAG
Found at i:22343036 original size:31 final size:28
Alignment explanation
Indices: 22342970--22343057 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 28
22342960 GTATTTTCTT
* * *
22342970 TAAAACCTAAAACCCTCCAAACCCAAAAA
1 TAAAACCTAAAACCCT-CAAAACTAAAAC
22342999 TCAAAACTCTAAAACCCTCAAAATCTTAAAAC
1 T-AAAAC-CTAAAACCCTCAAAA-C-TAAAAC
22343031 TAAAACCCT-AAACCCT-AAAACTAAAAC
1 TAAAA-CCTAAAACCCTCAAAACTAAAAC
22343058 CCAAATCCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
27 6 0.12
28 1 0.02
29 5 0.10
30 16 0.31
31 17 0.33
32 6 0.12
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (28 bp):
TAAAACCTAAAACCCTCAAAACTAAAAC
Found at i:22343041 original size:8 final size:8
Alignment explanation
Indices: 22342970--22343059 Score: 52
Period size: 7 Copynumber: 12.0 Consensus size: 8
22342960 GTATTTTCTT
22342970 TAAAA-CC
1 TAAAACCC
22342977 TAAAACCC
1 TAAAACCC
*
22342985 TCCAAACCC
1 T-AAAACCC
**
22342994 -AAAAATC
1 TAAAACCC
*
22343001 -AAAACTC
1 TAAAACCC
22343008 TAAAACCC
1 TAAAACCC
* *
22343016 TCAAAATCT
1 T-AAAACCC
22343025 TAAAA--C
1 TAAAACCC
22343031 TAAAACCC
1 TAAAACCC
22343039 T-AAACCC
1 TAAAACCC
22343046 TAAAA--C
1 TAAAACCC
22343052 TAAAACCC
1 TAAAACCC
22343060 AAATCCTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
6 11 0.17
7 22 0.34
8 20 0.31
9 12 0.18
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAACCC
Found at i:22343051 original size:21 final size:21
Alignment explanation
Indices: 22343007--22343083 Score: 93
Period size: 21 Copynumber: 3.6 Consensus size: 21
22342997 AATCAAAACT
*
22343007 CTAAAACCCTCAAAATCTTAAAA
1 CTAAAACCCT--AAATCCTAAAA
*
22343030 CTAAAACCCTAAACCCTAAAA
1 CTAAAACCCTAAATCCTAAAA
22343051 CTAAAACCC-AAATCCTAAAA
1 CTAAAACCCTAAATCCTAAAA
* *
22343071 TTAAAACTCTAAA
1 CTAAAACCCTAAA
22343084 GCCTTCAAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 17 0.35
21 21 0.44
23 10 0.21
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAAAACCCTAAATCCTAAAA
Found at i:22343101 original size:30 final size:29
Alignment explanation
Indices: 22343059--22343186 Score: 100
Period size: 30 Copynumber: 4.3 Consensus size: 29
22343049 AACTAAAACC
*
22343059 CAAATCCTAAAATTAAAACTCTAAAGCCTT
1 CAAACCCTAAAATTAAAACTCTAAA-CCTT
* * *
22343089 CAAACCAC-AAAATTGAAACCCTAAACCCT
1 CAAACC-CTAAAATTAAAACTCTAAACCTT
*
22343118 CTAAACCCTAAAATTAAAA-TCTTAAACCCTC
1 C-AAACCCTAAAATTAAAACTC-TAAA-CCTT
* * *
22343149 CAAACTCTAAAATTGAAAC-CTTAAACCCT
1 CAAACCCTAAAATTAAAACTC-TAAACCTT
22343178 CTAAACCCT
1 C-AAACCCT
22343187 GAAACTAAGG
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
29 9 0.12
30 65 0.83
31 4 0.05
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (29 bp):
CAAACCCTAAAATTAAAACTCTAAACCTT
Found at i:22343153 original size:60 final size:60
Alignment explanation
Indices: 22343064--22343186 Score: 178
Period size: 60 Copynumber: 2.0 Consensus size: 60
22343054 AAACCCAAAT
* *
22343064 CCTAAAATTAAAACTCTAAAGCCTTCAAAC-CACAAAATTGAAACCCTAAACCCTCTAAAC
1 CCTAAAATTAAAACTCTAAACCCTCCAAACTC-CAAAATTGAAACCCTAAACCCTCTAAAC
* *
22343124 CCTAAAATTAAAA-TCTTAAACCCTCCAAACTCTAAAATTGAAACCTTAAACCCTCTAAAC
1 CCTAAAATTAAAACTC-TAAACCCTCCAAACTCCAAAATTGAAACCCTAAACCCTCTAAAC
22343184 CCT
1 CCT
22343187 GAAACTAAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 2 0.04
60 54 0.95
61 1 0.02
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (60 bp):
CCTAAAATTAAAACTCTAAACCCTCCAAACTCCAAAATTGAAACCCTAAACCCTCTAAAC
Found at i:22343204 original size:30 final size:28
Alignment explanation
Indices: 22343108--22343206 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 28
22343098 AAATTGAAAC
22343108 CCTAAACCCTCTAAACCCTAAAATTAAAAT
1 CCTAAACCCTCTAAACCCTAAAATT--AAT
* * * *
22343138 CTTAAACCCTCCAAACTCTAAAATTGAAA
1 CCTAAACCCTCTAAACCCTAAAATT-AAT
* *
22343167 CCTTAAACCCTCTAAACCCTGAAACTAAGGT
1 CC-TAAACCCTCTAAACCCTAAAATTAA--T
22343198 CCTAAACCC
1 CCTAAACCC
22343207 CAATCCTTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
29 5 0.09
30 48 0.87
31 2 0.04
ACGTcount: A:0.41, C:0.32, G:0.04, T:0.22
Consensus pattern (28 bp):
CCTAAACCCTCTAAACCCTAAAATTAAT
Found at i:22343260 original size:30 final size:30
Alignment explanation
Indices: 22343224--22343336 Score: 88
Period size: 30 Copynumber: 3.7 Consensus size: 30
22343214 TAAAATCACA
*
22343224 CTAAACTCTCCAAACCCTAAAATCAAAACC
1 CTAAACTCTCAAAACCCTAAAATCAAAACC
* ** * *
22343254 CTAAACTCTCTAAACTTTAGAATCAAAATCT
1 CTAAACTCTCAAAACCCTAAAATCAAAA-CC
*
22343285 TTAAAC-CTTCAAAACCCTAAAATTTCAAAACC
1 CTAAACTC-TCAAAACCCTAAAA--TCAAAACC
* *
22343317 ATAAAATC-CAAAA-CCTAAAA
1 CTAAACTCTCAAAACCCTAAAA
22343337 CTCTAAATCT
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
30 32 0.49
31 21 0.32
32 5 0.08
33 7 0.11
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (30 bp):
CTAAACTCTCAAAACCCTAAAATCAAAACC
Found at i:22343330 original size:15 final size:15
Alignment explanation
Indices: 22343294--22343365 Score: 67
Period size: 15 Copynumber: 4.8 Consensus size: 15
22343284 TTTAAACCTT
*
22343294 CAAAACCCTAAAATTT
1 CAAAA-CCTAAAATTC
22343310 CAAAACCATAAAA-TC
1 CAAAACC-TAAAATTC
*
22343325 CAAAACCTAAAACTC
1 CAAAACCTAAAATTC
* * *
22343340 TAAATCTTAAAATT-
1 CAAAACCTAAAATTC
22343354 CAAAACCTAAAA
1 CAAAACCTAAAA
22343366 CCCTAAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 14 0.30
15 22 0.48
16 10 0.22
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
CAAAACCTAAAATTC
Found at i:22343357 original size:29 final size:29
Alignment explanation
Indices: 22343318--22343373 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
22343308 TTCAAAACCA
*
22343318 TAAAATCCAAAACCTAAAACTCTAAATCT
1 TAAAATCCAAAACCTAAAACCCTAAATCT
*
22343347 TAAAATTCAAAACCTAAAACCCTAAAT
1 TAAAATCCAAAACCTAAAACCCTAAAT
22343374 TTGATATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (29 bp):
TAAAATCCAAAACCTAAAACCCTAAATCT
Found at i:22344610 original size:104 final size:104
Alignment explanation
Indices: 22344466--22344810 Score: 401
Period size: 104 Copynumber: 3.3 Consensus size: 104
22344456 TTACGACATA
* * * * *
22344466 ATCTTTAAAACCTTTTAGTATAATCTTTAAGACCTCTAGGCAAAACATTTAAAATTTTTAAAGTT
1 ATCTTTAAGACCTTTAAGCATAATCTTTAAGACCTTTAGGCAAAATATTTAAAATTTTTAAAGTT
* * * **
22344531 TCAAGGCCTTTAATCAAATGAGCCTTCATACATGATGAG
66 TCAAGGCCTCTAATCAAAAGAGTCTTCATACATGACAAG
* * * * *
22344570 ATCTTTAAGACCTTTAAGCATAATCTCTAAAATCTTTAGGCGAAATATTTTAAATTTTTAAAGTT
1 ATCTTTAAGACCTTTAAGCATAATCTTTAAGACCTTTAGGCAAAATATTTAAAATTTTTAAAGTT
* * *
22344635 TCAAGGCCTCTAAT-AAGAGGAGTCTCCATACCTGACAAG
66 TCAAGGCCTCTAATCAA-AAGAGTCTTCATACATGACAAG
* * *
22344674 ATCTTTAAGACCTCTAAGCATAATCTTTAAGACCTTCAGGTAAAATATTTTAAAA--TTTAAAGT
1 ATCTTTAAGACCTTTAAGCATAATCTTTAAGACCTTTAGGCAAAATA-TTTAAAATTTTTAAAGT
* *
22344737 TTCAAGGCCTCT-ATCAAAAGAGTTTTCATACATAACAAG
65 TTCAAGGCCTCTAATCAAAAGAGTCTTCATACATGACAAG
* ** *
22344776 ATCTTTAAGAACTACAGGCATAATCTTTAAGACCT
1 ATCTTTAAGACCTTTAAGCATAATCTTTAAGACCT
22344811 CCGAGCATAA
Statistics
Matches: 204, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
102 50 0.25
103 24 0.12
104 124 0.61
105 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (104 bp):
ATCTTTAAGACCTTTAAGCATAATCTTTAAGACCTTTAGGCAAAATATTTAAAATTTTTAAAGTT
TCAAGGCCTCTAATCAAAAGAGTCTTCATACATGACAAG
Found at i:22346609 original size:29 final size:28
Alignment explanation
Indices: 22346550--22346610 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
22346540 TTGTGATCCT
*
22346550 ATTCAACAAAAAAAAAAAAAGAAAGTTAG
1 ATTCAAAAAAAAAAAAAAAAGAAAG-TAG
*
22346579 ATTCAAAAAAATAAAAAATAAATAAAG-AG
1 ATTCAAAAAAA-AAAAAA-AAAGAAAGTAG
22346608 ATT
1 ATT
22346611 GCTTGCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.54
30 6 0.21
31 7 0.25
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (28 bp):
ATTCAAAAAAAAAAAAAAAAGAAAGTAG
Found at i:22348514 original size:13 final size:13
Alignment explanation
Indices: 22348493--22348522 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22348483 CCAAGATAAG
*
22348493 AAAATTAAAAATA
1 AAAAGTAAAAATA
22348506 AAAAGTAAAAATA
1 AAAAGTAAAAATA
22348519 AAAA
1 AAAA
22348523 TATGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAAGTAAAAATA
Found at i:22348886 original size:13 final size:14
Alignment explanation
Indices: 22348850--22348886 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
22348840 ATTATTATTA
22348850 TCTTTTTTTTCTTT
1 TCTTTTTTTTCTTT
22348864 TCTTTTTTTT-TTT
1 TCTTTTTTTTCTTT
*
22348877 TGTTTTTTTT
1 TCTTTTTTTT
22348887 GTAATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:22349402 original size:31 final size:32
Alignment explanation
Indices: 22349367--22349436 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
22349357 ATTTCCAGAA
* *
22349367 TCCGGCGAA-AATTCCGGCGAA-ATTTGAATTT
1 TCCGGCGAACAATTCCGACGAACA-TTGAAGTT
22349398 TCCGGC-AACAATTCCGACGAACATTGAAGTT
1 TCCGGCGAACAATTCCGACGAACATTGAAGTT
22349429 TCCGGCGA
1 TCCGGCGA
22349437 CCAGTTCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 30 0.88
32 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (32 bp):
TCCGGCGAACAATTCCGACGAACATTGAAGTT
Found at i:22350170 original size:60 final size:58
Alignment explanation
Indices: 22349986--22350327 Score: 472
Period size: 60 Copynumber: 5.7 Consensus size: 58
22349976 AAAAAATTCT
*
22349986 AAAAAATAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAATAAATTTCAAA
1 AAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--AA-AATA-AAATTTC-AA
*
22350050 AAAAAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAT-AAATTTCAA
1 AAAAAATATTTTTGGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTCAA
*
22350108 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAATTTCAA
*
22350168 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAATAAATTTTCAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAAATTTCAA
*** * *
22350227 AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTC-A
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT--AAAATTTCAA
22350287 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
22350328 CTACAAAAAA
Statistics
Matches: 256, Mismatches: 14, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
57 26 0.10
58 22 0.09
59 60 0.23
60 94 0.37
61 10 0.04
62 1 0.00
63 10 0.04
64 33 0.13
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTCAA
Found at i:22350256 original size:119 final size:117
Alignment explanation
Indices: 22349986--22350327 Score: 501
Period size: 119 Copynumber: 2.9 Consensus size: 117
22349976 AAAAAATTCT
* * * **
22349986 AAAAAATA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAATAAATTTCAAA
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA-ATCA-AAATTTC-AA
*
22350050 AAAAAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAATAAATTTC
63 AAAAAATATTTTTGGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
*
22350106 AAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAA
1 AAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAA
22350170 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAATAAATTTTC
65 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAA-TTTC
* * *
22350225 AAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTC-AAA
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAAATTTCAAAA
22350289 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
65 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
22350328 CTACAAAAAA
Statistics
Matches: 206, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
117 27 0.13
118 25 0.12
119 100 0.49
120 17 0.08
121 37 0.18
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (117 bp):
AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAA
AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
Found at i:22352103 original size:16 final size:15
Alignment explanation
Indices: 22352077--22352108 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
22352067 CAATTATAAA
22352077 AAATTATAAATTATT
1 AAATTATAAATTATT
22352092 AAATTAATAAATTATT
1 AAATT-ATAAATTATT
22352108 A
1 A
22352109 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTATAAATTATT
Found at i:22352108 original size:3 final size:3
Alignment explanation
Indices: 22352102--22352147 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22352092 AAATTAATAA
22352102 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22352148 GACTTTTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22355022 original size:2 final size:2
Alignment explanation
Indices: 22355015--22355053 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22355005 TAAGCATGTG
22355015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22355054 TTCAGACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22370654 original size:3 final size:3
Alignment explanation
Indices: 22370646--22370681 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
22370636 TGCCAACCAA
22370646 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22370682 TAACAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22370671 original size:20 final size:20
Alignment explanation
Indices: 22370646--22370684 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22370636 TGCCAACCAA
22370646 AATAATAATAATAATATAAT
1 AATAATAATAATAATATAAT
22370666 AATAATAATAATAATATAA
1 AATAATAATAATAATATAA
22370685 CAAAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATAATAATAATATAAT
Found at i:22370684 original size:17 final size:17
Alignment explanation
Indices: 22370646--22370678 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22370636 TGCCAACCAA
22370646 AATAATAATAATAATAT
1 AATAATAATAATAATAT
22370663 AATAATAATAATAATA
1 AATAATAATAATAATA
22370679 ATATAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAATAT
Found at i:22373587 original size:25 final size:25
Alignment explanation
Indices: 22373559--22373616 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
22373549 TAATGTTTGG
22373559 ATAAATATTTATAAAAAAAATGAAA
1 ATAAATATTTATAAAAAAAATGAAA
* **
22373584 ATAAAGT-TTTTTAAAGGAAATGAAA
1 ATAAA-TATTTATAAAAAAAATGAAA
*
22373609 ATATATAT
1 ATAAATAT
22373617 GTATTCTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.04
25 25 0.93
26 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
ATAAATATTTATAAAAAAAATGAAA
Found at i:22373744 original size:16 final size:17
Alignment explanation
Indices: 22373723--22373761 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22373713 TCATTATAAG
22373723 AATTTTTT-TTAAT-TAT
1 AATTTTTTATT-ATCTAT
22373739 AATTTTTTATTATCTAT
1 AATTTTTTATTATCTAT
22373756 AATTTT
1 AATTTT
22373762 AGAACATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTATTATCTAT
Found at i:22373746 original size:15 final size:17
Alignment explanation
Indices: 22373723--22373761 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
22373713 TCATTATAAG
*
22373723 AATTTTTTTTAAT-TAT
1 AATTTTTTATAATCTAT
*
22373739 AATTTTTTATTATCTAT
1 AATTTTTTATAATCTAT
22373756 AATTTT
1 AATTTT
22373762 AGAACATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTATAATCTAT
Found at i:22377947 original size:16 final size:16
Alignment explanation
Indices: 22377921--22377963 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
22377911 TTGAATTTTT
*
22377921 ATTATTGTTATTGTCA
1 ATTATTATTATTGTCA
* *
22377937 TTTATTATTATTGTTA
1 ATTATTATTATTGTCA
22377953 ATTATTATTAT
1 ATTATTATTAT
22377964 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTATTATTATTGTCA
Found at i:22382524 original size:14 final size:14
Alignment explanation
Indices: 22382480--22382531 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
22382470 GAATTTAGGC
*
22382480 TTTGAGGTTTGGCGT
1 TTTGAGGTTTGG-GA
* *
22382495 TTTG-GTTTTAGGA
1 TTTGAGGTTTGGGA
22382508 TTTGAGGTTTGGGA
1 TTTGAGGTTTGGGA
*
22382522 TTTTAGGTTT
1 TTTGAGGTTT
22382532 AGGGTTTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 5 0.17
14 21 0.70
15 4 0.13
ACGTcount: A:0.12, C:0.02, G:0.35, T:0.52
Consensus pattern (14 bp):
TTTGAGGTTTGGGA
Found at i:22382525 original size:28 final size:29
Alignment explanation
Indices: 22382473--22382531 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
22382463 GTTTGTTGAA
*
22382473 TTTAGGCTTTGAGGTTTGGCGTTTT-GGT
1 TTTAGGATTTGAGGTTTGGCGTTTTAGGT
22382501 TTTAGGATTTGAGGTTTGG-GATTTTAGGT
1 TTTAGGATTTGAGGTTTGGCG-TTTTAGGT
22382530 TT
1 TT
22382532 AGGGTTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 1 0.04
28 22 0.79
29 5 0.18
ACGTcount: A:0.12, C:0.03, G:0.34, T:0.51
Consensus pattern (29 bp):
TTTAGGATTTGAGGTTTGGCGTTTTAGGT
Found at i:22383003 original size:23 final size:22
Alignment explanation
Indices: 22382960--22383024 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 22
22382950 AGTTTTAAAA
* *
22382960 ATTATT-TGAATTTTTATTATT
1 ATTATTGTCAATTATTATTATT
* *
22382981 GTTATTGTCATTTAATTATTATT
1 ATTATTGTCAATT-ATTATTATT
*
22383004 ATTATTGTTAATTATTATTAT
1 ATTATTGTCAATTATTATTAT
22383025 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 5 0.14
22 12 0.34
23 18 0.51
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
ATTATTGTCAATTATTATTATT
Found at i:22383084 original size:3 final size:3
Alignment explanation
Indices: 22383076--22383138 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
22383066 AGTATGCATA
22383076 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22383124 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
22383139 GTTAAAAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22383708 original size:16 final size:15
Alignment explanation
Indices: 22383689--22383720 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
22383679 GGTTTCTAGA
22383689 TTCTTTTTTTTCTTTT
1 TTCTTTTTTTT-TTTT
22383705 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTTTT
22383720 T
1 T
22383721 GAAACTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTCTTTTTTTTTTTT
Found at i:22394409 original size:27 final size:25
Alignment explanation
Indices: 22394369--22394448 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 25
22394359 TATATATTTG
*
22394369 ATAAATAAATTTTTTTATTAAATAAT
1 ATAAATATA-TTTTTTATTAAATAAT
*
22394395 ATAAAT-TATTATTTTAAATTAATTAGA-
1 ATAAATATATT-TTTT--ATTAAATA-AT
*
22394422 ATTAATATATTTTTTATTAAA-AAT
1 ATAAATATATTTTTTATTAAATAAT
22394446 ATA
1 ATA
22394449 TTAGTATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
23 1 0.02
24 5 0.12
25 10 0.23
26 6 0.14
27 16 0.37
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
ATAAATATATTTTTTATTAAATAAT
Found at i:22394411 original size:22 final size:21
Alignment explanation
Indices: 22394369--22394413 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
22394359 TATATATTTG
*
22394369 ATAAATAAATTTTTTTATTAA
1 ATAAATAAATTTTATTATTAA
22394390 ATAATATAAATTATTATT-TTAA
1 ATAA-ATAAATT-TTATTATTAA
22394412 AT
1 AT
22394414 TAATTAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAATAAATTTTATTATTAA
Found at i:22394424 original size:23 final size:24
Alignment explanation
Indices: 22394386--22394434 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
22394376 AATTTTTTTA
22394386 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
22394408 TTAAATTAAT-TAGAATTAATATATT
1 TTAAA-TAATATA-AATTAATATATT
22394433 TT
1 TT
22394435 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 2 0.09
25 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:22394451 original size:26 final size:23
Alignment explanation
Indices: 22394422--22394473 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 23
22394412 ATTAATTAGA
*
22394422 ATTAATATATTTTTTATTAAAAATAT
1 ATTAATATA-TATTTA-TAAAAAT-T
*
22394448 ATTAGTATATATTTATAAAAATT
1 ATTAATATATATTTATAAAAATT
22394471 ATT
1 ATT
22394474 TAAATACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 7 0.29
25 5 0.21
26 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTAATATATATTTATAAAAATT
Found at i:22394631 original size:13 final size:13
Alignment explanation
Indices: 22394613--22394645 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
22394603 AATATCTATT
22394613 AAATATTAATATA
1 AAATATTAATATA
22394626 AAATA-TAATATA
1 AAATATTAATATA
22394638 AAA-ATTAA
1 AAATATTAA
22394646 AAAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.05
12 13 0.68
13 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATATTAATATA
Found at i:22394639 original size:24 final size:24
Alignment explanation
Indices: 22394586--22394645 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
22394576 TGAAAATAAA
*
22394586 AATATAAATA--AATTTAAAATAT
1 AATATAAATATTAATATAAAATAT
*
22394608 -CTATTAAATATTAATATAAAATAT
1 AATA-TAAATATTAATATAAAATAT
*
22394632 AATATAAAAATTAA
1 AATATAAATATTAA
22394646 AAAAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.07
22 6 0.20
24 20 0.67
25 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AATATAAATATTAATATAAAATAT
Found at i:22395634 original size:19 final size:17
Alignment explanation
Indices: 22395605--22395648 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
22395595 ATTAAAATTT
* *
22395605 TTTAAAATTTAAATATTA
1 TTTATAATTTAAA-ATCA
22395623 TATTATAATTTAAAATCA
1 T-TTATAATTTAAAATCA
22395641 TTTATAAT
1 TTTATAAT
22395649 GCTAATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 5 0.22
19 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATAATTTAAAATCA
Found at i:22395644 original size:29 final size:28
Alignment explanation
Indices: 22395582--22395637 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
22395572 TAAATTCATG
*
22395582 ATTTAAATATTATATTAAAATTTTTTAAA
1 ATTTAAATATTATATTAAAA-TTTTAAAA
*
22395611 ATTTAAATATTATATTATAA-TTTAAAA
1 ATTTAAATATTATATTAAAATTTTAAAA
22395638 TCATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
29 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTAAATATTATATTAAAATTTTAAAA
Found at i:22400102 original size:23 final size:24
Alignment explanation
Indices: 22400075--22400123 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
22400065 AAATAATAAT
22400075 AATTATTATAATTATAA-TTAAAA
1 AATTATTATAATTATAATTTAAAA
*
22400098 AATTATTGTAATTATAATTTAAAA
1 AATTATTATAATTATAATTTAAAA
22400122 AA
1 AA
22400124 ATTAATGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AATTATTATAATTATAATTTAAAA
Found at i:22402648 original size:2 final size:2
Alignment explanation
Indices: 22402641--22402669 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22402631 GTTCAATCAA
22402641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22402670 CACACACACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22403660 original size:22 final size:22
Alignment explanation
Indices: 22403618--22403662 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22403608 ATTGCCAACC
* *
22403618 TATTAAAAATTTTATATAAATT
1 TATTAAAAATTTTACACAAATT
22403640 TATTAAAAATCTTT-CACAAATT
1 TATTAAAAAT-TTTACACAAATT
22403662 T
1 T
22403663 GTCAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTAAAAATTTTACACAAATT
Found at i:22406686 original size:22 final size:22
Alignment explanation
Indices: 22406659--22406705 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
22406649 TAAACCCTTA
*
22406659 AAAATTTATTTTTATCCTAATT
1 AAAATTTATTTTTACCCTAATT
22406681 AAAATTTATTTTTACCCTAATT
1 AAAATTTATTTTTACCCTAATT
22406703 AAA
1 AAA
22406706 CCTTCAATTA
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:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTTATTTTTACCCTAATT
Found at i:22406922 original size:2 final size:2
Alignment explanation
Indices: 22406915--22406945 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22406905 ATGTAGCACC
*
22406915 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22406946 GAGTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22408088 original size:62 final size:62
Alignment explanation
Indices: 22407968--22408093 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 62
22407958 TCTAGAAACG
* * *
22407968 TCTCTAACAAAAATTGAAGGGGATTATTTAAGACATTTTTACCCAAAAAATACATTGAATAA
1 TCTCTAACAAAAATTGAAAGGGATTATTCAAGACATTTTTACCCAAAAAACACATTGAATAA
* * *
22408030 TCTCTTACAAAAAATTGAATAGGG-TTATTCAAGGCATTTTTTA-CC-AAAAACACCTTGAATAA
1 TCTCTAAC-AAAAATTGAA-AGGGATTATTCAAGACA-TTTTTACCCAAAAAACACATTGAATAA
22408092 TC
1 TC
22408094 CCCTTCAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
62 24 0.44
63 22 0.40
64 9 0.16
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (62 bp):
TCTCTAACAAAAATTGAAAGGGATTATTCAAGACATTTTTACCCAAAAAACACATTGAATAA
Found at i:22408671 original size:34 final size:34
Alignment explanation
Indices: 22408633--22408699 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
22408623 TTCTTACATT
*
22408633 TTAAGTCAAATC-CTTAAACTTTTTGTCTGATTTG
1 TTAAGTCAAATCTC-TAAACTTTGTGTCTGATTTG
22408667 TTAAGTCAAATCTCTAAACTTTGTGTCTGATTT
1 TTAAGTCAAATCTCTAAACTTTGTGTCTGATTT
22408700 ATTATTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (34 bp):
TTAAGTCAAATCTCTAAACTTTGTGTCTGATTTG
Found at i:22411436 original size:14 final size:15
Alignment explanation
Indices: 22411417--22411447 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22411407 ATGTAAGAAT
22411417 TTAAAATTTA-AATA
1 TTAAAATTTATAATA
22411431 TTAAAATTTATAATA
1 TTAAAATTTATAATA
22411446 TT
1 TT
22411448 TTTTATTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATTTATAATA
Found at i:22412782 original size:81 final size:80
Alignment explanation
Indices: 22412665--22412840 Score: 219
Period size: 81 Copynumber: 2.2 Consensus size: 80
22412655 TGTCAATTTT
* * *
22412665 CATATTATTATTTTATGTTTAAAATTACCATATTTAATTGATATTAAATATTTATCAAA-CTCAA
1 CATATTA-TATTTTATGTTTAAAATTAACAAATTTAATTGAAATTAAATATTTATCAAACCT-AA
*
22412729 TTTTAAATTTTTTATAT
64 TTTTAAATTTTTTATAA
* * * ** *
22412746 CGTATTATAGTTTTATGTTTAAAATTAATAAATTTAATTGAAATTAAATGTTTATTGAGCCTAAT
1 CATATTATA-TTTTATGTTTAAAATTAACAAATTTAATTGAAATTAAATATTTATCAAACCTAAT
22412811 TTTAAATTTTTTATAA
65 TTTAAATTTTTTATAA
22412827 CATATTATTATTTT
1 CATATTA-TATTTT
22412841 GAGCCTAGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.02
81 75 0.93
82 4 0.05
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (80 bp):
CATATTATATTTTATGTTTAAAATTAACAAATTTAATTGAAATTAAATATTTATCAAACCTAATT
TTAAATTTTTTATAA
Found at i:22412853 original size:81 final size:82
Alignment explanation
Indices: 22412665--22412881 Score: 205
Period size: 81 Copynumber: 2.7 Consensus size: 82
22412655 TGTCAATTTT
** * *
22412665 CATATTATTA-TTTTATGTTTAAAATTACCAT-ATTTAATTGATATTAAATATTTA-TCAAACTC
1 CATATTA-TAGTTTTATGCCTAAAATTA-TATAATTTAATTGATATTAAATGTTTATTCAAACTC
*
22412727 AATTTTAAATTTTTTATAT
64 AATTTTAAATTTTTTATAA
* ** * * **
22412746 CGTATTATAGTTTTATGTTTAAAATTA-ATAAATTTAATTGAAATTAAATGTTTATTGAGCCT-A
1 CATATTATAGTTTTATGCCTAAAATTATAT-AATTTAATTGATATTAAATGTTTATTCAAACTCA
22412809 ATTTTAAATTTTTTATAA
65 ATTTTAAATTTTTTATAA
* * *
22412827 CATATTATTA-TTTTGA-GCCTAGAATTATATAATTTAATTTATATTAGATGTTTAT
1 CATATTA-TAGTTTT-ATGCCTAAAATTATATAATTTAATTGATATTAAATGTTTAT
22412882 GGAATTCAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
79 2 0.02
80 2 0.02
81 102 0.89
82 9 0.08
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (82 bp):
CATATTATAGTTTTATGCCTAAAATTATATAATTTAATTGATATTAAATGTTTATTCAAACTCAA
TTTTAAATTTTTTATAA
Found at i:22413547 original size:15 final size:16
Alignment explanation
Indices: 22413527--22413572 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
22413517 ATGTAAATTA
*
22413527 AAAATT-TATTTTTTT
1 AAAATTATATTATTTT
22413542 AAAATTATATTATTTT
1 AAAATTATATTATTTT
*
22413558 -ATATTATATATATTT
1 AAAATTATAT-TATTT
22413573 ACATTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AAAATTATATTATTTT
Found at i:22415278 original size:23 final size:23
Alignment explanation
Indices: 22415226--22415278 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
22415216 AGGGGAGTCA
22415226 AATAAT-TATTTTTATTTAATTT
1 AATAATATATTTTTATTTAATTT
*
22415248 AA-ATATATATTTTTTATTTTA-TT
1 AATA-ATATA-TTTTTATTTAATTT
22415271 AATAATAT
1 AATAATAT
22415279 CTATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 4 0.15
23 10 0.38
24 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATAATATATTTTTATTTAATTT
Found at i:22415493 original size:2 final size:2
Alignment explanation
Indices: 22415486--22415521 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
22415476 GCAGCGTAAG
*
22415486 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22415522 TTATTACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22424798 original size:27 final size:27
Alignment explanation
Indices: 22424767--22424819 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
22424757 CCCTCAATAA
22424767 CTAACTTGAAGAAAGAAAAATCTGCTC
1 CTAACTTGAAGAAAGAAAAATCTGCTC
22424794 CTAACTTGAAGAAAGAAAAATCTGCT
1 CTAACTTGAAGAAAGAAAAATCTGCT
22424820 TACTCACCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (27 bp):
CTAACTTGAAGAAAGAAAAATCTGCTC
Found at i:22427588 original size:31 final size:30
Alignment explanation
Indices: 22427545--22427610 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
22427535 ATACACTGTT
* * *
22427545 AGTAAATAAGATGATGTCATCTTATTAATG
1 AGTAAATAAGATGATATAATCTCATTAATG
*
22427575 AAGTAAATCAGATGATATAATCTCATTAATG
1 -AGTAAATAAGATGATATAATCTCATTAATG
22427606 AGTAA
1 AGTAA
22427611 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (30 bp):
AGTAAATAAGATGATATAATCTCATTAATG
Found at i:22430375 original size:53 final size:53
Alignment explanation
Indices: 22430290--22430401 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
22430280 CATCCCAACC
*
22430290 CAATTAGTGATGCCCACTGTAAAAAGCTTATTGATTTTGGCTTTTTAGGTCAT
1 CAATTAGTGATGCCCACTGTAAAAAGCCTATTGATTTTGGCTTTTTAGGTCAT
22430343 CAATTAGTGATGCCCACTGTAAAAAGCCTATTGATTTTGGCTTTTTAGGTCAT
1 CAATTAGTGATGCCCACTGTAAAAAGCCTATTGATTTTGGCTTTTTAGGTCAT
22430396 CAATTA
1 CAATTA
22430402 AGCATCTTAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (53 bp):
CAATTAGTGATGCCCACTGTAAAAAGCCTATTGATTTTGGCTTTTTAGGTCAT
Found at i:22431942 original size:30 final size:30
Alignment explanation
Indices: 22431901--22431984 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
22431891 TTGAAATAAC
* * *
22431901 ATTTTTCTTTAACTAAACCCTTAAATTACT
1 ATTTTTATTTAATTAAACCCTTAAAGTACT
** *
22431931 ATTTTTATTTAATTAAATTCTTAAAGTATT
1 ATTTTTATTTAATTAAACCCTTAAAGTACT
22431961 ATTTTTATTTAATTAAACCCTTAA
1 ATTTTTATTTAATTAAACCCTTAA
22431985 TTTTTTCATG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.51
Consensus pattern (30 bp):
ATTTTTATTTAATTAAACCCTTAAAGTACT
Found at i:22432436 original size:15 final size:16
Alignment explanation
Indices: 22432416--22432449 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22432406 CATGTAGTTA
22432416 TTTATTTATTTT-ACT
1 TTTATTTATTTTCACT
*
22432431 TTTATTTCTTTTCACT
1 TTTATTTATTTTCACT
22432447 TTT
1 TTT
22432450 TAAAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTATTTTCACT
Found at i:22433238 original size:49 final size:49
Alignment explanation
Indices: 22433133--22433238 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 49
22433123 TTATATGTTT
* * * *
22433133 TAATTTTTCTTACTTATATCGATGATTAATGCCTGTCAGTATAGACTTA
1 TAATTTTTCTTACCTATACCGATGATTAATGCCTGTCAATATAAACTTA
* *
22433182 TAATTTTTCTTACCTATACCGATGCTTAGCAT-CC-GTCAATATAAACTTG
1 TAATTTTTCTTACCTATACCGATGATTA--ATGCCTGTCAATATAAACTTA
*
22433231 TATTTTTT
1 TAATTTTT
22433239 AATTTTCTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 44 0.92
50 2 0.04
51 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.45
Consensus pattern (49 bp):
TAATTTTTCTTACCTATACCGATGATTAATGCCTGTCAATATAAACTTA
Found at i:22434230 original size:10 final size:10
Alignment explanation
Indices: 22434215--22434240 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22434205 TAATGAAATC
22434215 TTAAAATTTA
1 TTAAAATTTA
22434225 TTAAAATTTA
1 TTAAAATTTA
22434235 TTAAAA
1 TTAAAA
22434241 GGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Done.