Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 266 of 378
Found at i:79864396 original size:22 final size:22
Alignment explanation
Indices: 79864368--79864426 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
79864358 CAAATACGTC
*
79864368 TGGCACACTGCCATAAT-TAGGT
1 TGGCACACAGCCAT-ATGTAGGT
*
79864390 TGGCACAGAGCCATATGTAGGT
1 TGGCACACAGCCATATGTAGGT
* *
79864412 TGGCGCAAAGCCATA
1 TGGCACACAGCCATA
79864427 ATCAGAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (22 bp):
TGGCACACAGCCATATGTAGGT
Found at i:79865321 original size:27 final size:27
Alignment explanation
Indices: 79864851--79865309 Score: 627
Period size: 27 Copynumber: 17.0 Consensus size: 27
79864841 TCTCGATAAA
* *
79864851 TCTACCCTATAGGGGTATTTCAGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
79864878 TTTACCCTAC-GAGGGTATTTCAATAAT
1 TCTACCCTACAG-GGGTATTTCAGTAAT
79864905 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* * * *
79864932 TATACCTTACAGGGGTATTTCGGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
79864959 TCTACCCTACAAGGGTATTTC-GATAAT
1 TCTACCCTACAGGGGTATTTCAG-TAAT
* *
79864986 TCTACCCTACAAGGGTATTTCAGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
79865013 TCTACCCTACAAGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
** *
79865040 TCTACCCTACAGGGGTATTTTGGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
79865067 TCTACCCTACAAGGGTATTTC-GATAAT
1 TCTACCCTACAGGGGTATTTCAG-TAAT
79865094 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
79865121 TCTACCCTACAAGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
** *
79865148 TCTACCCTACAGGCATATTTCAGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
79865175 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
79865202 TCTACCCTACAAGGGTATTTCAGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* * *
79865229 TCTACCCTACAAGGGTATTTCGGTAGT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
79865256 TCTACCCTACAGGGATATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
79865283 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
79865310 ACTAGCTTAC
Statistics
Matches: 385, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.01
27 379 0.98
28 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCAGTAAT
Found at i:79878899 original size:39 final size:39
Alignment explanation
Indices: 79878856--79878933 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
79878846 AGTATCACCT
* * *
79878856 TGGAAGAAAGTTCATCGGTTTGGCCATAAAGGAAAACTG
1 TGGAAAAAAGCTCATCGGTTTAGCCATAAAGGAAAACTG
*
79878895 TGGAAAAAAGCTCTTCGGTTTAGCCATAAAGGAAAACTG
1 TGGAAAAAAGCTCATCGGTTTAGCCATAAAGGAAAACTG
79878934 AGACCACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (39 bp):
TGGAAAAAAGCTCATCGGTTTAGCCATAAAGGAAAACTG
Found at i:79897369 original size:24 final size:23
Alignment explanation
Indices: 79897338--79897403 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
79897328 ACATGTTAAG
*
79897338 CTCA-ATGAGCTTCCTGTTCTAAA
1 CTCAGATGAGCTTCCTGTTAT-AA
** * * *
79897361 CTCTTATGAGTTTCCTATTATAG
1 CTCAGATGAGCTTCCTGTTATAA
79897384 CTCAGATGAGCTTCCTGTTA
1 CTCAGATGAGCTTCCTGTTA
79897404 CATGACTCAC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (23 bp):
CTCAGATGAGCTTCCTGTTATAA
Found at i:79901635 original size:113 final size:111
Alignment explanation
Indices: 79901461--79901991 Score: 359
Period size: 109 Copynumber: 4.8 Consensus size: 111
79901451 TAAAATTATA
* * * *
79901461 TTATAACAAATAACAGTACACATTAAACTAAACAAATAATTTATAATCTAATTATAAATTACTAA
1 TTATAACAAATAACAATAAACATTAAACTAAACAAACAATTTATAATCTAATCATAAATTACTAA
*
79901526 CAAAATAACTTTA-AACTAATTTAAAAAACACAAAAAAAATTTACAT
66 CAAAATAACTTTATAA-TAATTAAAAAAACACAAAAAAAATTTACAT
* * *
79901572 TTATAACAAGTCACAATAAACATTGAACTAAACACAAACAATTTATAA-CATAATCATAAATTAC
1 TTATAACAAATAACAATAAACATTAAACT-AA-ACAAACAATTTATAATC-TAATCATAAATTAC
* ** * * *
79901636 TAACAAAATAATTTTATAATAATT---AAAA-A-AATTATATTCTTA-AA
63 TAACAAAATAACTTTATAATAATTAAAAAAACACAAAAAAAAT-TTACAT
** * * * *
79901680 AAATCAC-AATAAACATTAAAC--TAAAC-ACATACAAACAATTTATAACCTAACCATAAATTAC
1 TTATAACAAAT-AACAATAAACATTAAACTA-A-ACAAACAATTTATAATCTAATCATAAATTAC
* * * * * *
79901741 TAACAAAATGACTTAAAAATAATTTTAAAAAATAC--AAAAAA-GTACAT
63 TAACAAAATAACTTTATAATAA-TTAAAAAAACACAAAAAAAATTTACAT
** * * * * *
79901788 TCGTAAAAAATCACAA-AAACACTAAACTAAACACAAATAATTTATAACCTAATCATAAATTACT
1 TTATAACAAATAACAATAAACATTAAACT-AA-ACAAACAATTTATAATCTAATCATAAATTACT
* * * ** *
79901852 AACAAAATAACTATAAAATATTTTTTAAAAA-GC--AAAAAATTTACAT
64 AACAAAATAACTTTATAATA-ATTAAAAAAACACAAAAAAAATTTACAT
* * * * *
79901898 TGATAA-AAAT-TCACA-AAACACTAAACTAAACACAAACAATTTATAACCTAATTATAAATTAC
1 TTATAACAAATAACA-ATAAACATTAAACT-AA-ACAAACAATTTATAATCTAATCATAAATTAC
*
79901960 TAACAAAATAACTTTAAAATAATTATAAAAAA
63 TAACAAAATAACTTTATAATAATTA-AAAAAA
79901992 TTACATTCAT
Statistics
Matches: 338, Mismatches: 58, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
104 1 0.00
105 47 0.14
106 7 0.02
107 8 0.02
108 28 0.08
109 100 0.30
110 70 0.21
111 25 0.07
112 3 0.01
113 47 0.14
114 2 0.01
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.28
Consensus pattern (111 bp):
TTATAACAAATAACAATAAACATTAAACTAAACAAACAATTTATAATCTAATCATAAATTACTAA
CAAAATAACTTTATAATAATTAAAAAAACACAAAAAAAATTTACAT
Found at i:79901854 original size:110 final size:110
Alignment explanation
Indices: 79901640--79901992 Score: 446
Period size: 109 Copynumber: 3.2 Consensus size: 110
79901630 AATTACTAAC
* * * *
79901640 AAAATAATTTTATAATAATTA-AAAAAATTATATTCTTAAAAAATCACAATAAACATTAAACTAA
1 AAAATAATTTTA-AA-AAATACAAAAAATTACATTCGTAAAAAATCACAA-AAACACTAAACT-A
* *
79901704 ACACATACAAACAATTTATAACCTAACCATAAATTACTAACAAAATGACTTA
62 A-AC--ACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTA
*
79901756 AAAATAATTTTAAAAAATACAAAAAAGTACATTCGTAAAAAATCACAAAAACACTAAACTAAACA
1 AAAATAATTTTAAAAAATACAAAAAATTACATTCGTAAAAAATCACAAAAACACTAAACTAAACA
*
79901821 CAAATAATTTATAACCTAATCATAAATTACTAACAAAATAAC-TA
66 CAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTA
* * * *
79901865 TAAAATATTTTTTAAAAA-GCAAAAAATTTACATT-GATAAAAATTCAC-AAAACACTAAACTAA
1 -AAAATAATTTTAAAAAATACAAAAAA-TTACATTCG-TAAAAAATCACAAAAACACTAAACTAA
* *
79901927 ACACAAACAATTTATAACCTAATTATAAATTACTAACAAAATAACTTT
63 ACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTA
*
79901975 AAAATAATTATAAAAAAT
1 AAAATAATTTTAAAAAAT
79901993 TACATTCATA
Statistics
Matches: 212, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
109 82 0.39
110 72 0.34
112 2 0.01
113 2 0.01
114 15 0.07
115 27 0.13
116 12 0.06
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (110 bp):
AAAATAATTTTAAAAAATACAAAAAATTACATTCGTAAAAAATCACAAAAACACTAAACTAAACA
CAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTA
Found at i:79902457 original size:15 final size:17
Alignment explanation
Indices: 79902423--79902463 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
79902413 ACCACTAATT
*
79902423 AAATAATAATTTTTTTA
1 AAATAATAATTTTATTA
79902440 AAATAA-AA-TTTATTA
1 AAATAATAATTTTATTA
79902455 AAA-AATAAT
1 AAATAATAAT
79902464 GGTGCCGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 2 0.10
15 11 0.52
16 2 0.10
17 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATAATTTTATTA
Found at i:79903259 original size:16 final size:16
Alignment explanation
Indices: 79903238--79903271 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
79903228 ATAACTAAAG
79903238 AAAAAATAAATAGATA
1 AAAAAATAAATAGATA
*
79903254 AAAAAATAGATAGATA
1 AAAAAATAAATAGATA
79903270 AA
1 AA
79903272 TGAGAGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAATAAATAGATA
Found at i:79907221 original size:18 final size:19
Alignment explanation
Indices: 79907184--79907222 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
79907174 TAGGATTTGA
* *
79907184 TACTGTATATCTGTTACTG
1 TACTGAATATCTGATACTG
79907203 TACTGAATAT-TGATACTG
1 TACTGAATATCTGATACTG
79907221 TA
1 TA
79907223 ATGGGCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (19 bp):
TACTGAATATCTGATACTG
Found at i:79908378 original size:19 final size:19
Alignment explanation
Indices: 79908351--79908388 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
79908341 AATTTCTAAA
79908351 AAATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
*
79908370 AAATGATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
79908389 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:79913167 original size:6 final size:5
Alignment explanation
Indices: 79913132--79913166 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
79913122 CTGTGTGTTC
79913132 TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
79913167 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:79914811 original size:40 final size:40
Alignment explanation
Indices: 79914752--79914920 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
79914742 CGGGACTTTA
* * *
79914752 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
79914792 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
79914832 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
79914872 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
79914912 CCCGGATAT
1 CCCGGATAT
79914921 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:79918674 original size:28 final size:28
Alignment explanation
Indices: 79918642--79918724 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
79918632 AACTGTGATC
79918642 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
*** *
79918670 ACGTGTACCGTA-TAA-T--TGG-T-C-
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
*
79918691 ACATGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
79918719 ACGTGT
1 ACGTGT
79918725 ACCGGATAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
21 8 0.21
22 4 0.11
23 2 0.05
24 2 0.05
25 2 0.05
26 2 0.05
27 4 0.11
28 14 0.37
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:79918776 original size:49 final size:49
Alignment explanation
Indices: 79918587--79918781 Score: 255
Period size: 49 Copynumber: 3.9 Consensus size: 49
79918577 TCTATTGTGA
* * * *
79918587 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-T-T
* * * *
79918638 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGTATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
*
79918687 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * * *
79918736 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
79918782 GCTTTGGCTA
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 88 0.69
50 1 0.01
51 39 0.30
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
Found at i:79923925 original size:5 final size:5
Alignment explanation
Indices: 79923910--79923943 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
79923900 CTATGTGTTC
*
79923910 TTTATT TTTAT TTTAT GTTAT TTTAT TTTAT TTT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
79923944 TCACAATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:79925207 original size:12 final size:12
Alignment explanation
Indices: 79925190--79925225 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
79925180 GACAAGGATG
*
79925190 GGGGAAGGGGAA
1 GGGGAAGGGAAA
79925202 GGGGAAGGGAAA
1 GGGGAAGGGAAA
*
79925214 GGGAAAGGGAAA
1 GGGGAAGGGAAA
79925226 ATCGGAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (12 bp):
GGGGAAGGGAAA
Found at i:79925211 original size:17 final size:17
Alignment explanation
Indices: 79925191--79925224 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
79925181 ACAAGGATGG
* *
79925191 GGGAAGGGGAAGGGGAA
1 GGGAAAGGGAAAGGGAA
79925208 GGGAAAGGGAAAGGGAA
1 GGGAAAGGGAAAGGGAA
79925225 AATCGGAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (17 bp):
GGGAAAGGGAAAGGGAA
Found at i:79927950 original size:21 final size:20
Alignment explanation
Indices: 79927891--79927951 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
79927881 GCTTCCACCA
* *
79927891 AGGGTTATGGTTGCTCCGGC
1 AGGGTTGTGGTTGCTCTGGC
* *
79927911 AGGGTTTGTGATTACTCTGGC
1 AGGG-TTGTGGTTGCTCTGGC
*
79927932 GAGGGTTGTGGTTGTTCTGG
1 -AGGGTTGTGGTTGCTCTGG
79927952 TTGTGGGTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.10, C:0.13, G:0.41, T:0.36
Consensus pattern (20 bp):
AGGGTTGTGGTTGCTCTGGC
Found at i:79928222 original size:18 final size:18
Alignment explanation
Indices: 79928181--79928223 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
79928171 GACTGGAAAA
* *
79928181 AAGAAACATATAAGGGTT
1 AAGATACATATAAGGGCT
79928199 AAGATACATATAAGGGCT
1 AAGATACATATAAGGGCT
*
79928217 AGGATAC
1 AAGATAC
79928224 GCATTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (18 bp):
AAGATACATATAAGGGCT
Found at i:79935777 original size:29 final size:30
Alignment explanation
Indices: 79935715--79935796 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 30
79935705 GTTAACAACT
* *
79935715 GGACTTAATTTTAAAATATGAAAAGTAAAG
1 GGACTAAATTTTAAAATATGAAAAGTAAAA
79935745 GGACTAAATTTCTAAAA-AT-AAAAG-AATAA
1 GGACTAAATTT-TAAAATATGAAAAGTAA-AA
*
79935774 GGACTAAATTATAAAATCATGAA
1 GGACTAAATTTTAAAAT-ATGAA
79935797 GCATATATGG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
28 7 0.16
29 16 0.36
30 14 0.32
31 7 0.16
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.27
Consensus pattern (30 bp):
GGACTAAATTTTAAAATATGAAAAGTAAAA
Found at i:79937680 original size:17 final size:17
Alignment explanation
Indices: 79937654--79937697 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
79937644 TTTGAAAGTT
*
79937654 ATTTTATTAGGTTATTA
1 ATTTTGTTAGGTTATTA
79937671 ATTTTGTTAGGTTATTA
1 ATTTTGTTAGGTTATTA
79937688 ATTTTGTTAG
1 ATTTTGTTAG
79937698 CTTCTGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (17 bp):
ATTTTGTTAGGTTATTA
Found at i:79939178 original size:2 final size:2
Alignment explanation
Indices: 79939171--79939198 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
79939161 TTGTTTGATG
79939171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79939199 TCGGCAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79940484 original size:48 final size:48
Alignment explanation
Indices: 79940428--79940750 Score: 547
Period size: 48 Copynumber: 6.7 Consensus size: 48
79940418 TATGTGTGAA
79940428 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
* * *
79940476 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTGTGTGAT
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
*
79940524 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
* *
79940572 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGAT
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
*
79940620 ATGTATATGTGGTAAAGCCGAATGGTGAATGTGAAATATATATGAGAT
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
* *
79940668 ATGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGAT
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
* *
79940716 ATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
79940751 TGTTGTAACA
Statistics
Matches: 256, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 256 1.00
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGAT
Found at i:79940845 original size:37 final size:37
Alignment explanation
Indices: 79940795--79940902 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
79940785 GGAAATATAT
79940795 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
79940832 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
79940869 TCCGGGTAAGACCCGATAACTTCGTGTAGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
79940903 TCGTCTGAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:79944402 original size:76 final size:75
Alignment explanation
Indices: 79944273--79944513 Score: 277
Period size: 77 Copynumber: 3.1 Consensus size: 75
79944263 AAAGTTAGTC
* * * *
79944273 TAAAGTTTATTTATTTAAATTGAAAAAAAAAACATAAAATTGATAACTGAAATGTG-AAAAAGTC
1 TAAAGTTTA-CTATTTAAATTGAAAAAAAAAACATAAAATTGATAAATAAAATG-GAAAAAAATC
79944337 ATTACATAAATA
64 ATTACATAAATA
**
79944349 TAAAGTTTACTATTTAAATTGTAAAAAAAACCCATAAAATTGATAAATAAAATGGAAAAAAAATC
1 TAAAGTTTACTATTTAAATTG-AAAAAAAAAACATAAAATTGATAAATAAAATGG-AAAAAAATC
79944414 ATTACATAAATA
64 ATTACATAAATA
* * * * *
79944426 CAAAATTGACTATTTAAATTGCAAAATATATATATATATAAAATTGATAAATAAAATGGAAAAAA
1 TAAAGTTTACTATTTAAATTG-AAAA-A-A-A-AAACATAAAATTGATAAATAAAATGGAAAAAA
79944491 ATTCATTACATAAATA
61 A-TCATTACATAAATA
*
79944507 TGAAGTT
1 TAAAGTT
79944514 GTTTATATTA
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
75 12 0.09
76 37 0.26
77 41 0.29
78 1 0.01
79 1 0.01
80 8 0.06
81 41 0.29
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (75 bp):
TAAAGTTTACTATTTAAATTGAAAAAAAAAACATAAAATTGATAAATAAAATGGAAAAAAATCAT
TACATAAATA
Found at i:79944497 original size:81 final size:77
Alignment explanation
Indices: 79944284--79944506 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 77
79944274 AAAGTTTATT
* * * *
79944284 TATTTAAATTG-AAAAAAAAAACATAAAATTGATAACTGAAATGTG--AAAAAGTCATTACATAA
1 TATTTAAATTGCAAAAAAAACACATAAAATTGATAAATAAAATG-GAAAAAAAATCATTACATAA
* * *
79944346 ATATAAAGTTTAC
65 ATACAAAATTGAC
* *
79944359 TATTTAAATTGTAAAAAAAACCCATAAAATTGATAAATAAAATGGAAAAAAAATCATTACATAAA
1 TATTTAAATTGCAAAAAAAACACATAAAATTGATAAATAAAATGGAAAAAAAATCATTACATAAA
79944424 TACAAAATTGAC
66 TACAAAATTGAC
* * *
79944436 TATTTAAATTGCAAAATATATATATATATAAAATTGATAAATAAAATGGAAAAAAATTCATTACA
1 TATTTAAATTGCAAAA-A-A-A-ACACATAAAATTGATAAATAAAATGGAAAAAAAATCATTACA
79944501 TAAATA
62 TAAATA
79944507 TGAAGTTGTT
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
75 12 0.09
76 28 0.22
77 41 0.32
78 1 0.01
79 1 0.01
80 1 0.01
81 44 0.34
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (77 bp):
TATTTAAATTGCAAAAAAAACACATAAAATTGATAAATAAAATGGAAAAAAAATCATTACATAAA
TACAAAATTGAC
Found at i:79944761 original size:33 final size:33
Alignment explanation
Indices: 79944724--79944794 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
79944714 TACAGTAGTT
** *
79944724 GATACGGGCCGAGAA-GAGTGGAGTACGGCGGTG
1 GATACGGGCCG-GAAGGAGCAGAGTACGGAGGTG
*
79944757 GATACGGGCCGGAAGGAGCAGAGTACTGAGGTG
1 GATACGGGCCGGAAGGAGCAGAGTACGGAGGTG
79944790 GATAC
1 GATAC
79944795 AAGTCAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.27, C:0.15, G:0.45, T:0.13
Consensus pattern (33 bp):
GATACGGGCCGGAAGGAGCAGAGTACGGAGGTG
Found at i:79946434 original size:20 final size:20
Alignment explanation
Indices: 79946409--79946447 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
79946399 TGAGTATCAT
79946409 ATAAAAATTTCATTACTATA
1 ATAAAAATTTCATTACTATA
*
79946429 ATAAAAATTTCGTTACTAT
1 ATAAAAATTTCATTACTAT
79946448 CTCATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAAAAATTTCATTACTATA
Found at i:79946680 original size:28 final size:28
Alignment explanation
Indices: 79946649--79946706 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
79946639 TACTTTACAA
79946649 TAATAATATAATTAAAATAAATAAAAAC
1 TAATAATATAATTAAAATAAATAAAAAC
79946677 TAATAATATAATTAAAATAAATAAAAAC
1 TAATAATATAATTAAAATAAATAAAAAC
79946705 TA
1 TA
79946707 TCTAAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (28 bp):
TAATAATATAATTAAAATAAATAAAAAC
Found at i:79946721 original size:28 final size:27
Alignment explanation
Indices: 79946649--79946723 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
79946639 TACTTTACAA
*
79946649 TAATAATATAATTAAAATAAATAAAAAC
1 TAATAACATAA-TAAAATAAATAAAAAC
*
79946677 TAATAATATAATTAAAATAAATAAAAAC
1 TAATAACATAA-TAAAATAAATAAAAAC
*
79946705 TATCTAAACATAA-AAAATA
1 TA-AT-AACATAATAAAATA
79946724 TACGAATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 36 0.84
29 1 0.02
30 6 0.14
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (27 bp):
TAATAACATAATAAAATAAATAAAAAC
Found at i:79947035 original size:102 final size:104
Alignment explanation
Indices: 79946895--79947141 Score: 340
Period size: 102 Copynumber: 2.4 Consensus size: 104
79946885 AAAATTACAT
* *
79946895 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATGAATTACTATC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
*
79946960 GAAATAACTAT-A-ATTTTTTTTTAAAAAAATACATTAC
66 AAAATAACTATAATATTTTTTTTTAAAAAAATACATTAC
*
79946997 TAAAAAATCACAAAACAC-ATAACTAAACACTAACAATTTATATAATCTAATCATAAATTACTAA
1 TAAAAAATCACAAAACACTA-AACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAA
**
79947061 CAAAATAACTATAAAATTATTTTTTTTTAAAAATTTACATTAC
65 CAAAATAACTAT--AA-TATTTTTTTTTAAAAAAATACATTAC
* * **
79947104 TAAAAAATCACAAAACCCTATA-TAAATGCTAACAATTT
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTT
79947142 GCAACCTAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
101 1 0.01
102 70 0.55
105 1 0.01
106 14 0.11
107 41 0.32
108 1 0.01
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (104 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACTATAATATTTTTTTTTAAAAAAATACATTAC
Found at i:79947170 original size:106 final size:107
Alignment explanation
Indices: 79946895--79947174 Score: 328
Period size: 102 Copynumber: 2.7 Consensus size: 107
79946885 AAAATTACAT
* * *
79946895 TAAAAAATCACAAAACAC-TAAACTAAACACTAACAATTTATATAACCTAATCATGAATTACTAT
1 TAAAAAATCACAAAACACAT-AACTAAACACTAACAATTTATACAACCTAATCATAAATTACTAA
*
79946959 CGAAATAACTAT---A--ATTTTTTTTTAAAAAAATACATTAC
65 CAAAATAACTATAAAATTATTTTTTTTTAAAAAAATACATTAC
* *
79946997 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAATCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATACAACCTAATCATAAATTACTAAC
**
79947062 AAAATAACTATAAAATTATTTTTTTTTAAAAATTTACATTAC
66 AAAATAACTATAAAATTATTTTTTTTTAAAAAAATACATTAC
* ** * *
79947104 TAAAAAATCACAAAAC-CCTATA-TAAATGCTAACAA-TT-TGCAACCTAATCTCATAAATTATT
1 TAAAAAATCACAAAACACATA-ACTAAACACTAACAATTTATACAACCTAA--TCATAAATTACT
*
79947165 CACAAAATAA
63 AACAAAATAA
79947175 ATAACTATAA
Statistics
Matches: 155, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
102 70 0.45
103 1 0.01
104 7 0.05
105 3 0.02
106 34 0.22
107 40 0.26
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.31
Consensus pattern (107 bp):
TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATACAACCTAATCATAAATTACTAAC
AAAATAACTATAAAATTATTTTTTTTTAAAAAAATACATTAC
Found at i:79947880 original size:23 final size:23
Alignment explanation
Indices: 79947851--79947914 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
79947841 ATATATATTT
79947851 AAATATTTTTAATAAAAATAAAA
1 AAATATTTTTAATAAAAATAAAA
* * * *
79947874 TAATA-TTTTATTTAAAGTAAAA
1 AAATATTTTTAATAAAAATAAAA
*
79947896 AAATATTTTAATATAAAAA
1 AAATATTTTTA-ATAAAAA
79947915 ATGGTTGCGC
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
22 18 0.60
23 8 0.27
24 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATTTTTAATAAAAATAAAA
Found at i:79948844 original size:14 final size:14
Alignment explanation
Indices: 79948833--79948862 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79948823 GTAAAATGTT
79948833 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
79948846 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
79948860 TTT
1 TTT
79948863 ACTTTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:79948891 original size:65 final size:65
Alignment explanation
Indices: 79948802--79948933 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
79948792 AACTTATTAC
* * * *
79948802 TTAGGCTCCGTTTGTTTGCCAGTAAAATGTTTTTCGGAAAATGATTTCTGGAAAATGATTTACTT
1 TTAGGCTCCGTTTGTTTGCCAGTAAAATATTTTCCAGAAAATAATTTCTGGAAAATGATTTACTT
* *
79948867 TTAGGGTCCGTTTGTTTGCTAGTAAAATATTTTCCAGAAAATAATTTCTGGAAAATGATTTACTT
1 TTAGGCTCCGTTTGTTTGCCAGTAAAATATTTTCCAGAAAATAATTTCTGGAAAATGATTTACTT
79948932 TT
1 TT
79948934 CTGGAAATGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.42
Consensus pattern (65 bp):
TTAGGCTCCGTTTGTTTGCCAGTAAAATATTTTCCAGAAAATAATTTCTGGAAAATGATTTACTT
Found at i:79948943 original size:19 final size:20
Alignment explanation
Indices: 79948911--79948954 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
79948901 CAGAAAATAA
79948911 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
79948931 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
79948950 TTTCT
1 TTTCT
79948955 AGTGTTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:79949059 original size:28 final size:27
Alignment explanation
Indices: 79949028--79949097 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
79949018 CCGAAAAAGC
*
79949028 TGTTTTTACATATATTTATATTTTAAAT
1 TGTTTTTACATATATTTATACTTT-AAT
* *
79949056 TGTTTTTTA-ATAAATTTATACTTTAGT
1 TG-TTTTTACATATATTTATACTTTAAT
79949083 T-TTTTTACATATATT
1 TGTTTTTACATATATT
79949098 GCAATGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.17
26 6 0.17
27 3 0.08
28 15 0.42
29 6 0.17
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TGTTTTTACATATATTTATACTTTAAT
Found at i:79950346 original size:21 final size:21
Alignment explanation
Indices: 79950322--79950363 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
79950312 TCAATATCAT
79950322 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
79950343 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
79950364 CAAACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:79950397 original size:21 final size:21
Alignment explanation
Indices: 79950332--79950397 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
79950322 TATCCAACCA
79950332 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
79950353 AATAAATTCAACAAACTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
*
79950378 AATAAATTTAATATCTAACA
1 AATAAATTCAATATCTAACA
79950398 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:79950398 original size:32 final size:32
Alignment explanation
Indices: 79950356--79950437 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
79950346 CTAACATAAT
*
79950356 AAATTCAACAAACTTAAAACATAATAAATTT-A
1 AAATCCAACAAACTTAAAACATAAT-AATTTCA
* * *
79950388 ATATCTAACAAA-TTCAAGACATAATAATTTCA
1 AAATCCAACAAACTT-AAAACATAATAATTTCA
79950420 AAATCCAACAAAC-TAAAA
1 AAATCCAACAAACTTAAAA
79950438 TTTCAATATC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
31 10 0.25
32 30 0.75
ACGTcount: A:0.57, C:0.16, G:0.01, T:0.26
Consensus pattern (32 bp):
AAATCCAACAAACTTAAAACATAATAATTTCA
Found at i:79952582 original size:13 final size:13
Alignment explanation
Indices: 79952564--79952589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79952554 AAGATTATCC
79952564 TATCCTAATAATA
1 TATCCTAATAATA
79952577 TATCCTAATAATA
1 TATCCTAATAATA
79952590 AATTTGAATT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCTAATAATA
Found at i:79954948 original size:20 final size:20
Alignment explanation
Indices: 79954919--79954956 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
79954909 TTGTTAATAG
79954919 AATTGCAGCAAACAACAACA
1 AATTGCAGCAAACAACAACA
*
79954939 AATTGTAGCAAACAACAA
1 AATTGCAGCAAACAACAA
79954957 ACAGAGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.21, G:0.11, T:0.13
Consensus pattern (20 bp):
AATTGCAGCAAACAACAACA
Found at i:79955500 original size:18 final size:18
Alignment explanation
Indices: 79955474--79955516 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
79955464 AAAAGTTGTT
*
79955474 TTTACATATATTAAAAAA
1 TTTATATATATTAAAAAA
79955492 TTTATATATATTAAAAAA
1 TTTATATATATTAAAAAA
79955510 TTTATAT
1 TTTATAT
79955517 TTTAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATATATATTAAAAAA
Found at i:79955521 original size:16 final size:16
Alignment explanation
Indices: 79955479--79955521 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
79955469 TTGTTTTTAC
*
79955479 ATATATTAAAAAATTT
1 ATATTTTAAAAAATTT
79955495 ATATATATTAAAAAATTT
1 ATAT-T-TTAAAAAATTT
79955513 ATATTTTAA
1 ATATTTTAA
79955522 TTTATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTAAAAAATTT
Found at i:79964161 original size:18 final size:17
Alignment explanation
Indices: 79964123--79964161 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
79964113 AACTTAGTCA
*
79964123 TTTTAATAAAATGTTAT
1 TTTTAATAAAATGTGAT
*
79964140 TTTTACTAAAATGATGAT
1 TTTTAATAAAATG-TGAT
79964158 TTTT
1 TTTT
79964162 GGTCTACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (17 bp):
TTTTAATAAAATGTGAT
Found at i:79967169 original size:84 final size:82
Alignment explanation
Indices: 79967047--79967251 Score: 356
Period size: 84 Copynumber: 2.5 Consensus size: 82
79967037 GGTATACATC
*
79967047 TTTCAACAAATCATTTGAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGT
1 TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGT
*
79967112 AATATGTTAACCAACCA
66 AAAATGTTAACCAACCA
*
79967129 TTTCAACAAATCATTTAAAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGCA
1 TTTCAACAAATCATTT--AAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCA
79967194 GTAAAATGTTAACCAACCA
64 GTAAAATGTTAACCAACCA
*
79967213 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTA
79967252 ACCATCTCAA
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
82 38 0.32
84 79 0.68
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.26
Consensus pattern (82 bp):
TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGT
AAAATGTTAACCAACCA
Found at i:79967796 original size:158 final size:157
Alignment explanation
Indices: 79967326--79967784 Score: 584
Period size: 158 Copynumber: 2.9 Consensus size: 157
79967316 ATATGCCATT
* * * *
79967326 TTTTTTTGGTTTCTAGTTCTCATACTCGTACCAAACT--GAGAATAAAAATAAAAACCCCAAATT
1 TTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAAACTAAGACAAAAAAAATAAAAA-CCCAAATT
* * *
79967389 AGATTTAAATAATTTAGAATTGACATTAAAAAAGTGTTTACGATATATCTGTGATCTAGTTGTGT
65 AGATTTAAATATTTTAGAATTGACATT-AAAGAGTGTTTACGATATACCTGTGATCTAGTTGTGT
* * *
79967454 TAGGCTGAATGCATGGTGTTCTGTTGTTC
129 TAGGTTGAATGCATGGTGTTATGTTGTTA
* * * *
79967483 TTTTTTTGGCTTCTAGTTCAT-GTACTCGTACC-ATCTAAGACTAAAAAAATTAGAACCCTAAAT
1 TTTTTTTGGCTTCTAGTTC-TCGTACTCGTACCAAACTAAGACAAAAAAAATAAAAACCC-AAAT
* ** * * *
79967546 TAGATTAAAATATTTTTTAATTGACATTAAAGTAGTGTATACGATATACCTGTGATCTAATTGTA
64 TAGATTTAAATATTTTAGAATTGACATTAAAG-AGTGTTTACGATATACCTGTGATCTAGTTGTG
79967611 TTAGGTTGAATGCATGGTGTTATGTTGTTA
128 TTAGGTTGAATGCATGGTGTTATGTTGTTA
* *
79967641 TTTTTTGGGCTTCTAGTTCTCGTACTCGTACCAAACTAAGACAAAAAAAATCAAAACCCAAATTA
1 TTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAAACTAAGACAAAAAAAATAAAAACCCAAATTA
* * * * * *
79967706 GATTTTAATATTTTGGAATTGAAAATTAAAGAGTGTTTACGATATACCTATGTTCTCGTTGTGTT
66 GATTTAAATATTTTAGAATTG-ACATTAAAGAGTGTTTACGATATACCTGTGATCTAGTTGTGTT
79967771 AGGTTGAATGCATG
130 AGGTTGAATGCATG
79967785 ATCTTTTGTT
Statistics
Matches: 258, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
156 3 0.01
157 35 0.14
158 190 0.74
159 30 0.12
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (157 bp):
TTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAAACTAAGACAAAAAAAATAAAAACCCAAATTA
GATTTAAATATTTTAGAATTGACATTAAAGAGTGTTTACGATATACCTGTGATCTAGTTGTGTTA
GGTTGAATGCATGGTGTTATGTTGTTA
Found at i:79973187 original size:93 final size:93
Alignment explanation
Indices: 79973070--79973240 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
79973060 GCCCATAAGT
* * * *
79973070 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
79973135 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
79973163 GAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
79973228 CGAGTTCGGATGC
66 CGAGCTCGGATGC
79973241 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:79973237 original size:46 final size:46
Alignment explanation
Indices: 79973062--79973237 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
79973052 TGTAACCCGC
* * *
79973062 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
79973108 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
79973154 ACATCTCTCGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
79973201 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
79973238 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:79975179 original size:18 final size:18
Alignment explanation
Indices: 79975146--79975184 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
79975136 TAAATGTTCT
*
79975146 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
79975163 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
79975182 TTT
1 TTT
79975185 GCTGACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:79981955 original size:20 final size:19
Alignment explanation
Indices: 79981930--79981969 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
79981920 TTCCTTTATT
79981930 TATATAAATAAATTAATAAA
1 TATATAAATAAA-TAATAAA
*
79981950 TATATAAATATATAATAAA
1 TATATAAATAAATAATAAA
79981969 T
1 T
79981970 TTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAAATAAATAATAAA
Found at i:79990845 original size:96 final size:98
Alignment explanation
Indices: 79990732--79990933 Score: 286
Period size: 96 Copynumber: 2.1 Consensus size: 98
79990722 TTTAAAAAAT
* * *
79990732 AAAATATATTTAACATAATGATAAATATAAAA-A-ATATTTTTATTATATAATTATATAATTATT
1 AAAATATTTTTAACATAATGATAAATATAAAATAGATA-TTTTATTATATAATTACAT-ATAATT
*
79990795 AA-TTT-TTTATATAAATAAAGGAGCTATTAATTA
64 AATTTTATTTATATAAATAAAAGAGCTATTAATTA
* *
79990828 AAAATATTTTTAACATAATGATATATTTAAAATAGATATTTTATTATATAATTACATATAATTAA
1 AAAATATTTTTAACATAATGATAAATATAAAATAGATATTTTATTATATAATTACATATAATTAA
**
79990893 TTTTATTTATATAAATAAAAGATTTATTAATTA
66 TTTTATTTATATAAATAAAAGAGCTATTAATTA
79990926 AAAATATT
1 AAAATATT
79990934 AATTAAAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
96 36 0.38
97 22 0.23
98 36 0.38
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (98 bp):
AAAATATTTTTAACATAATGATAAATATAAAATAGATATTTTATTATATAATTACATATAATTAA
TTTTATTTATATAAATAAAAGAGCTATTAATTA
Found at i:79990935 original size:13 final size:13
Alignment explanation
Indices: 79990917--79990942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79990907 ATAAAAGATT
79990917 TATTAATTAAAAA
1 TATTAATTAAAAA
79990930 TATTAATTAAAAA
1 TATTAATTAAAAA
79990943 AAACTTGAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:79993201 original size:24 final size:24
Alignment explanation
Indices: 79993159--79993211 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
79993149 TCATGTGTCA
* *
79993159 CACACGGTCCTGCAAACGGTCTGT
1 CACACGGTCCTACAAACGGTCTGG
79993183 CACACGG-CCTACAACACGGTCTGG
1 CACACGGTCCTACAA-ACGGTCTGG
79993207 CACAC
1 CACAC
79993212 TGCCATGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.15
Consensus pattern (24 bp):
CACACGGTCCTACAAACGGTCTGG
Found at i:79996704 original size:33 final size:33
Alignment explanation
Indices: 79996667--79996731 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
79996657 AATTGAATGG
79996667 AGAGAAAATAAAATAATTGAAAACACTGAAATT
1 AGAGAAAATAAAATAATTGAAAACACTGAAATT
* * * *
79996700 AGAGAATATAAGATAGTTGAAAACATTGAAAT
1 AGAGAAAATAAAATAATTGAAAACACTGAAAT
79996732 GAAAATTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (33 bp):
AGAGAAAATAAAATAATTGAAAACACTGAAATT
Found at i:80000841 original size:21 final size:20
Alignment explanation
Indices: 80000814--80000872 Score: 93
Period size: 19 Copynumber: 3.0 Consensus size: 20
80000804 TAACACATGA
80000814 AATATATTTATTAAAGTTTT
1 AATATATTTATTAAAGTTTT
*
80000834 ACATATATTTATTAAA-CTTT
1 A-ATATATTTATTAAAGTTTT
80000854 AATATATTTATTAAAGTTT
1 AATATATTTATTAAAGTTT
80000873 AGTTTAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.40
20 7 0.20
21 14 0.40
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AATATATTTATTAAAGTTTT
Found at i:80001552 original size:14 final size:14
Alignment explanation
Indices: 80001533--80001563 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
80001523 TTCGTGGCTA
*
80001533 CATATTATTGCAGC
1 CATATTATTGCACC
80001547 CATATTATTGCACC
1 CATATTATTGCACC
80001561 CAT
1 CAT
80001564 TCATCCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (14 bp):
CATATTATTGCACC
Found at i:80004392 original size:20 final size:21
Alignment explanation
Indices: 80004359--80004397 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
80004349 TTCTTTTTCA
80004359 TTTTCCTTTCTTTTCTTCCCT
1 TTTTCCTTTCTTTTCTTCCCT
* *
80004380 TTTTTCTTT-TTTTTTTCC
1 TTTTCCTTTCTTTTCTTCC
80004398 TTACCCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCCTTTCTTTTCTTCCCT
Found at i:80005425 original size:17 final size:16
Alignment explanation
Indices: 80005388--80005426 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
80005378 AATAAACAAT
80005388 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
80005403 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
80005421 TAAATT
1 TAAATT
80005427 CGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:80014195 original size:6 final size:6
Alignment explanation
Indices: 80014170--80014205 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
80014160 GTTTTGTTAC
80014170 AAAATA AAATATA AATAATA AAAATA AAAATA AAAA
1 AAAATA AAA-ATA AA-AATA AAAATA AAAATA AAAA
80014206 CCAAATAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.61
7 10 0.36
8 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:80017075 original size:50 final size:51
Alignment explanation
Indices: 80016956--80017087 Score: 158
Period size: 52 Copynumber: 2.6 Consensus size: 51
80016946 GTTGTGAGAA
* * **
80016956 CACATGTGTAGTACTATGTGCAGGCTACTATATGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGG-TTTAGGT
* * *
80017008 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTTAGGT
* * *
80017058 CGCATGTGTAGTACTAAGTGTAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
80017088 TGTGTACCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 32 0.46
52 37 0.54
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTTAGGT
Found at i:80022725 original size:13 final size:13
Alignment explanation
Indices: 80022709--80022745 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
80022699 AAAAAAAAGC
80022709 AAGAAAGATGAAG
1 AAGAAAGATGAAG
80022722 AAG--AG-TGAAG
1 AAGAAAGATGAAG
80022732 AAGAAAGATGAAG
1 AAGAAAGATGAAG
80022745 A
1 A
80022746 CAGAGGTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 2 0.10
13 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
AAGAAAGATGAAG
Found at i:80022786 original size:14 final size:15
Alignment explanation
Indices: 80022759--80022816 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 15
80022749 AGGTACGTAA
80022759 AAGAAAAAGAGAAAG
1 AAGAAAAAGAGAAAG
*
80022774 AAGAAAAA-TGAAAG
1 AAGAAAAAGAGAAAG
* *
80022788 AA-AAGAAGGGAAA-
1 AAGAAAAAGAGAAAG
*
80022801 AAGAAAAAGAAAAAG
1 AAGAAAAAGAGAAAG
80022816 A
1 A
80022817 GATACAAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 6 0.18
14 19 0.56
15 9 0.26
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (15 bp):
AAGAAAAAGAGAAAG
Found at i:80024238 original size:12 final size:13
Alignment explanation
Indices: 80024209--80024251 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
80024199 ATATCATTTA
* *
80024209 AAATAAAAAAATT
1 AAATATAAATATT
80024222 AAAATATAAATA-T
1 -AAATATAAATATT
80024235 AAATATAAATATT
1 AAATATAAATATT
80024248 AAAT
1 AAAT
80024252 GATTGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 11 0.42
13 6 0.23
14 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATATAAATATT
Found at i:80024875 original size:8 final size:9
Alignment explanation
Indices: 80024857--80024883 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
80024847 ATTTGTGTTC
80024857 TTTATTTTT
1 TTTATTTTT
80024866 TTTATTTTT
1 TTTATTTTT
80024875 TTTATTTTT
1 TTTATTTTT
80024884 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:80035239 original size:3 final size:3
Alignment explanation
Indices: 80035231--80035278 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
80035221 AAAGGCCCAA
*
80035231 ATT ATT ATT -TT CATT ATT ATT ATT AAAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
80035277 AT
1 AT
80035279 CATTTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.85
4 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:80035691 original size:51 final size:50
Alignment explanation
Indices: 80035636--80035865 Score: 164
Period size: 52 Copynumber: 4.5 Consensus size: 50
80035626 TAAAAATATG
*
80035636 TTTTTTCAATTATTTTAAAGGAAAGTTTAAATTTTAAAATAAAGTTTTGAT
1 TTTTTTTAATTATTTTAAAGGAAAGTTTAAATTTTAAAATAAA-TTTTGAT
* * * * * * *
80035687 TTTTTTTAACTAGTATAAAGTAAAAGCTTT-AATCCTTAAGAA-AAATTGTGTT
1 TTTTTTTAATTATTTTAAAG-GAAAG-TTTAAAT-TTTAA-AATAAATTTTGAT
* *** * *
80035739 TTTTTTTAATAATAAAAAAGGAGAGTTTAGATTTTAAAAAATAATATTTTG-T
1 TTTTTTTAATTATTTTAAAGGAAAGTTTAAATTTT--AAAATAA-ATTTTGAT
* *
80035791 TTTTTTTAGTAATTTTAAAGGAAAGTTTAAAATTTTAACACA-AAATTTTGA-
1 TTTTTTTAATTATTTTAAAGGAAAGTTT-AAATTTTAA-A-ATAAATTTTGAT
* *
80035842 TTTTTTTAACTATTTCAAAGGAAA
1 TTTTTTTAATTATTTTAAAGGAAA
80035866 AGCTTCAATC
Statistics
Matches: 138, Mismatches: 28, Indels: 26
0.72 0.15 0.14
Matches are distributed among these distances:
50 5 0.04
51 51 0.37
52 58 0.42
53 22 0.16
54 2 0.01
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.45
Consensus pattern (50 bp):
TTTTTTTAATTATTTTAAAGGAAAGTTTAAATTTTAAAATAAATTTTGAT
Found at i:80035963 original size:150 final size:151
Alignment explanation
Indices: 80035597--80036008 Score: 451
Period size: 150 Copynumber: 2.7 Consensus size: 151
80035587 TTGATTTTTT
* * * ** * *
80035597 TAAAAAAAGAGAGTTTATATTTTAACTAATAAAAATATGTTTTTTCAA-TTATTTTAAAGGAAAG
1 TAAAAAAGGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAAGTAATTTTAAAGGAAAG
* * *
80035661 TTT-AAATTTTAAAATAAAGTTTTGATTTTTTTTAACTAGTAT-AAAGTAAAAGCTTTAATCCTT
66 TTTAAAATTTTAAAATAAAGTTTTGA-TTTTTTTAACTA-TTTCAAAGGAAAAGCTTCAATCCTT
** *
80035724 AAGAAAAATTGTGTTTTTTTTTAATAA
129 AAGAAAAA---T-TAATATTTTAATAA
* * * * *
80035751 TAAAAAAGGAGAGTTTAGATTTTAAAAAATAATATTTTGTTTTTTTTAGTAATTTTAAAGGAAAG
1 TAAAAAAGGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAAGTAATTTTAAAGGAAAG
* * * *
80035816 TTTAAAATTTTAACACAAAATTTTGATTTTTTTAACTATTTCAAAGGAAAAGCTTCAATCTTTAA
66 TTTAAAATTTTAAAATAAAGTTTTGATTTTTTTAACTATTTCAAAGGAAAAGCTTCAATCCTTAA
*
80035881 TAAAAA-TAATATTTT-A-AA
131 GAAAAATTAATATTTTAATAA
* *
80035899 -AAAAAAGGTAAAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGA
1 TAAAAAAGG---AAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAAGTAATTTTAAAGGA
*
80035963 AAGTTTAAAATTTTAAAATAAAGTTCTGATTTTTTTAAACTATTTC
63 AAGTTTAAAATTTTAAAATAAAGTTTTGATTTTTTT-AACTATTTC
80036009 GAAACAATGC
Statistics
Matches: 219, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
147 8 0.04
148 2 0.01
149 1 0.00
150 84 0.38
151 9 0.04
154 41 0.19
155 55 0.25
156 19 0.09
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.42
Consensus pattern (151 bp):
TAAAAAAGGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAAGTAATTTTAAAGGAAAG
TTTAAAATTTTAAAATAAAGTTTTGATTTTTTTAACTATTTCAAAGGAAAAGCTTCAATCCTTAA
GAAAAATTAATATTTTAATAA
Found at i:80036632 original size:11 final size:10
Alignment explanation
Indices: 80036608--80036642 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
80036598 ACTTGTATAC
80036608 TTTTTATTTA
1 TTTTTATTTA
*
80036618 TTTTTATTTCG
1 TTTTTATTT-A
80036629 TTTTTATTTA
1 TTTTTATTTA
80036639 TTTT
1 TTTT
80036643 AATGTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:80039025 original size:27 final size:27
Alignment explanation
Indices: 80038984--80039037 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
80038974 TGTCATGTGA
* *
80038984 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
80039011 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
80039038 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:80039351 original size:49 final size:50
Alignment explanation
Indices: 80039271--80039508 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 50
80039261 TGAGGTCATG
*
80039271 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * *
80039320 TGTGTAGTACTAAGTGCAGGCCACTATGTGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* * * ** *
80039371 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * *
80039421 TGTATAGTGCTAAGTGCAGGCTACTACGTGTACCATATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* *
80039470 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
80039509 GCCTTGTCTA
Statistics
Matches: 157, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 76 0.48
50 45 0.29
51 36 0.23
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:80049538 original size:60 final size:59
Alignment explanation
Indices: 80049403--80049541 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
80049393 ATTAGAGTTA
*
80049403 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAG-ATCAGAGTAT
* * * *
80049464 ACTGGGCCTAGCCCATATCAGTGTCAATCTGGGTCATAGCCCCATTACA-AGTC-GAGATAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCC-TTACAGA-TCAGAG-TAT
**
80049524 GTTGGGCCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
80049542 TAACACAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 49 0.73
61 14 0.21
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAGATCAGAGTAT
Found at i:80051303 original size:68 final size:68
Alignment explanation
Indices: 80051231--80051414 Score: 250
Period size: 68 Copynumber: 2.7 Consensus size: 68
80051221 CATCATGTGT
* *
80051231 ACAAGAAG-GCTAC-GAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
1 ACAAGAAGAGCTACGGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
80051294 TGTAG
64 TGTAG
80051299 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTACG-GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
80051363 GTAG
65 GTAG
* * * *
80051367 ACAAG-AGAGCTATGTGAGAGATAAATCTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTACG-GAGAGATAAATGTAGCTAGGTCACATGTGTGAT
80051415 TCCAAGTGAA
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
67 2 0.02
68 96 0.90
69 4 0.04
70 5 0.05
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (68 bp):
ACAAGAAGAGCTACGGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:80051488 original size:66 final size:68
Alignment explanation
Indices: 80051291--80051488 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 68
80051281 GGGATGTATC
* * * *
80051291 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATCTAGCTAGGTCGCATGAGTGATACCAAGTGA
* *
80051353 TGTATC-
63 AGGA-CA
*
80051359 CCATGTAGACAAGAGAGCTATGTGAGAGATAAATCTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATCTAGCTAGGTCGCATGAGTGATACCAAGTGA
80051424 AGGACA
63 AGGACA
* * * *
80051430 CCATGTAGACAAGAGAGCTA-CGAGATAAATC-GGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTAGAGAGATAAATCTAGCTAGGTCGCATGAGTGATACCAAGTG
80051489 TTCACCATGT
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
66 24 0.21
67 10 0.09
68 52 0.46
69 1 0.01
70 1 0.01
71 25 0.22
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTAGAGAGATAAATCTAGCTAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:80055881 original size:11 final size:11
Alignment explanation
Indices: 80055849--80055893 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
80055839 AGAAACCTTC
*
80055849 AAAATATTAT-
1 AAAAAATTATA
80055859 AAAAAA-TA-A
1 AAAAAATTATA
*
80055868 AAAAAATTGTA
1 AAAAAATTATA
80055879 AAAAAATTATA
1 AAAAAATTATA
80055890 AAAA
1 AAAA
80055894 GAAATCGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 8 0.28
10 6 0.21
11 15 0.52
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:80063621 original size:19 final size:19
Alignment explanation
Indices: 80063597--80063635 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
80063587 ACATAATAAA
80063597 ATATACTTTAAACATGAAT
1 ATATACTTTAAACATGAAT
80063616 ATATACTTTAAACATGAAT
1 ATATACTTTAAACATGAAT
80063635 A
1 A
80063636 ATAGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
ATATACTTTAAACATGAAT
Found at i:80064104 original size:18 final size:17
Alignment explanation
Indices: 80064078--80064113 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
80064068 TTTTGAGGTG
*
80064078 ATTTGATAAATAATAAAA
1 ATTTAATAAATAA-AAAA
80064096 ATTTAATAAATAAAAAA
1 ATTTAATAAATAAAAAA
80064113 A
1 A
80064114 GATGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTTAATAAATAAAAAA
Found at i:80067152 original size:25 final size:27
Alignment explanation
Indices: 80067093--80067154 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
80067083 GGTTAAGGGT
*
80067093 AAAAAGAAGAATAAGAGAAATTGAGAA
1 AAAAAGAAGAATAAGAGAAATAGAGAA
*
80067120 AAAGAAGAAGAA-AAGA-AAA-AGAGGAG
1 AAA-AAGAAGAATAAGAGAAATAGA-GAA
80067146 AAAAAGAAG
1 AAAAAGAAG
80067155 GGGAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 8 0.26
26 8 0.26
27 7 0.23
28 8 0.26
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (27 bp):
AAAAAGAAGAATAAGAGAAATAGAGAA
Found at i:80070333 original size:3 final size:3
Alignment explanation
Indices: 80070325--80070386 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
80070315 TTCCATGTTC
* **
80070325 TCT TCT TC- TCT TCT TCT TCT TCT TCA T-T TCT TC- TCT TAG TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
80070370 TTT TC- TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT
80070387 ACTGCCCAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
2 7 0.16
3 38 0.84
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:80070341 original size:11 final size:11
Alignment explanation
Indices: 80070325--80070386 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
80070315 TTCCATGTTC
80070325 TCTTCTTCTCT
1 TCTTCTTCTCT
80070336 TCTTC-T-TCT
1 TCTTCTTCTCT
80070345 TCTTCATT-TCT
1 TCTTC-TTCTCT
*
80070356 TC-TCTTAGTCT
1 TCTTCTT-CTCT
*
80070367 TCTTTTTCTCT
1 TCTTCTTCTCT
*
80070378 TTTTCTTCT
1 TCTTCTTCT
80070387 ACTGCCCAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 10 0.24
10 3 0.07
11 26 0.62
12 3 0.07
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (11 bp):
TCTTCTTCTCT
Found at i:80070347 original size:17 final size:17
Alignment explanation
Indices: 80070322--80070386 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
80070312 TCCTTCCATG
80070322 TTCTCTTCTTC-TCTTC
1 TTCTCTTCTTCTTCTTC
*
80070338 TTCTTCTTCTTCAT-TTC
1 TTC-TCTTCTTCTTCTTC
** *
80070355 TTCTCTTAGTCTTCTTT
1 TTCTCTTCTTCTTCTTC
*
80070372 TTCTCTTTTTCTTCT
1 TTCTCTTCTTCTTCT
80070387 ACTGCCCAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 10 0.25
17 29 0.73
18 1 0.03
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (17 bp):
TTCTCTTCTTCTTCTTC
Found at i:80070381 original size:8 final size:8
Alignment explanation
Indices: 80070322--80070361 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
80070312 TCCTTCCATG
80070322 TTCTCTTC
1 TTCTCTTC
80070330 TTCTCTTC
1 TTCTCTTC
80070338 TTCTTCTTC
1 TTC-TCTTC
80070347 TTCAT-TTC
1 TTC-TCTTC
80070355 TTCTCTT
1 TTCTCTT
80070362 AGTCTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 1 0.03
8 19 0.66
9 9 0.31
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (8 bp):
TTCTCTTC
Found at i:80070383 original size:25 final size:25
Alignment explanation
Indices: 80070322--80070383 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
80070312 TCCTTCCATG
**
80070322 TTCTCTTCTTCTCTTCTTCTTCTTC
1 TTCTCTTCTTCTCTTAGTCTTCTTC
*
80070347 TTCAT-TTCTTCTCTTAGTCTTCTTT
1 TTC-TCTTCTTCTCTTAGTCTTCTTC
*
80070372 TTCTCTTTTTCT
1 TTCTCTTCTTCT
80070384 TCTACTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (25 bp):
TTCTCTTCTTCTCTTAGTCTTCTTC
Found at i:80076320 original size:40 final size:40
Alignment explanation
Indices: 80076220--80076364 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
80076210 TACTCGAATG
* * * *
80076220 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * * *
80076261 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
** * *
80076301 ATATCCGGGCTAAGTTCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
80076341 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
80076365 CTTGGGCGAG
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 60 0.68
41 28 0.32
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:80084350 original size:40 final size:40
Alignment explanation
Indices: 80084249--80084393 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
80084239 TACTCGAATG
* *
80084249 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
80084290 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
80084330 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
80084370 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
80084394 CTTGGGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:80089305 original size:40 final size:40
Alignment explanation
Indices: 80089231--80089376 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
80089221 CCGCACCAAG
* * * * * *
80089231 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
80089271 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
80089311 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
80089351 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
80089377 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:80089391 original size:40 final size:40
Alignment explanation
Indices: 80089263--80089414 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
80089253 ATCACGATTT
* * * **
80089263 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
80089303 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
80089343 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
80089383 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
80089415 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:80097371 original size:40 final size:39
Alignment explanation
Indices: 80097297--80097441 Score: 164
Period size: 40 Copynumber: 3.7 Consensus size: 39
80097287 CCGCACCAAG
* * * * *
80097297 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAAC-ACTTGCACAAAT
* *
80097337 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAAC-ACTTGCACAAAT
* * *
80097377 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACACTTGCACAAAT
* *
80097416 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
80097442 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 32 0.36
40 57 0.64
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACACTTGCACAAAT
Found at i:80104774 original size:40 final size:40
Alignment explanation
Indices: 80104729--80104896 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
80104719 CGGAATATAA
80104729 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
80104769 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
80104809 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
80104849 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
80104889 CCGGATAT
1 CCGGATAT
80104897 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:80104879 original size:80 final size:80
Alignment explanation
Indices: 80104745--80104894 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
80104735 ATAATCACGT
*
80104745 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
80104809 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
80104825 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
80104888 CCCGGAT
64 CCCGGAT
80104895 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:80108706 original size:40 final size:40
Alignment explanation
Indices: 80108661--80108828 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
80108651 CGGAATATAA
80108661 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
80108701 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
80108741 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
80108781 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
80108821 CCGGATAT
1 CCGGATAT
80108829 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:80108811 original size:80 final size:80
Alignment explanation
Indices: 80108677--80108826 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
80108667 ATAATCACGT
*
80108677 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
80108741 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
80108757 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
80108820 CCCGGAT
64 CCCGGAT
80108827 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:80114271 original size:13 final size:13
Alignment explanation
Indices: 80114253--80114278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80114243 GCATTTGGGT
80114253 GCACACGGCTGTG
1 GCACACGGCTGTG
80114266 GCACACGGCTGTG
1 GCACACGGCTGTG
80114279 TCCTGCTTCG
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:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
GCACACGGCTGTG
Found at i:80128101 original size:2 final size:2
Alignment explanation
Indices: 80128094--80128118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80128084 TTTACAAAAC
80128094 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 A
80128119 AATAGATTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80130606 original size:176 final size:176
Alignment explanation
Indices: 80130278--80131054 Score: 988
Period size: 176 Copynumber: 4.4 Consensus size: 176
80130268 CTATCTCAAA
* * * * * * *
80130278 AAGGCTAGT-GTTAACATCTGCTCCATTACCGATACATGAATATAATATTCACCATATTCGATCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCGCCATCTTCGATCT
* * *
80130342 GCTCCACTACTGCTTAGGGAGAT-AGATTTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAA
66 GCTCCACTACTGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCA-GAA
*
80130406 A-ATAAGACTACAATC-GCAAACCTGCTCTCTTGCTACCTCAGAGAGAT
130 AGATAAGACT-CAATCTTC-AACCTGCTCTCTTGCTACCTCAGAGAGAT
* ** * *
80130453 AAGGCTAATGGCTAAAATCTGCTCCATTGGTGATACATGTAGATAAGATTCGCCATCTTTGATCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCGCCATCTTCGATCT
* * * *
80130518 GCTCCACCACTGTTTAGGGAGATAAGATCTTCAATATTCAGTCTACTTTCTTGCTACCTCAGAAA
66 GCTCCACTACTGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAA
*
80130583 GATAAAACTCAATCTTCAACCTGCTCTCTTGCTACCGT-AGAGAGAT
131 GATAAGACTCAATCTTCAACCTGCTCTCTTGCTACC-TCAGAGAGAT
* * *
80130629 AAGGCTAGTGGCTTAAATCTGCTCCATTTCCGATACATGAAGATAAGATTCGCCATCGTCGATCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCGCCATCTTCGATCT
** * ** * * * *
80130694 GCTCTGCTGCAACTTCAGGGAGATAAGATCTTCAATGTTCAGTCTGCTTCCTTACTACCTTAGAA
66 GCTCCACTAC-TGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAA
*
80130759 AGATAAGACTCAATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGAT
130 AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * *
80130806 AAGGCTAGTGGCTAAAACCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCATCTTCGATCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCGCCATCTTCGATCT
** * * * * *
80130871 GCTCTGCTACTATTTAGGGAGATAAGATCTTTAATCTTCAGTATGCTTCCTTGCTACCTTAGGAA
66 GCTCCACTACTGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAA
* **
80130936 GATAAGACTCAATATTCAACCCACTCTCTTGCTACCTCAGAGAGAT
131 GATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * * * * * *
80130982 AAGGCTTGTGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTTGTCATCTTTGGTCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCGCCATCTTCGATCT
80131047 GCTCCACT
66 GCTCCACT
80131055 GCAACTTCAG
Statistics
Matches: 525, Mismatches: 70, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
175 8 0.02
176 319 0.61
177 198 0.38
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (176 bp):
AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCGCCATCTTCGATCT
GCTCCACTACTGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAA
GATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
Found at i:80131003 original size:353 final size:354
Alignment explanation
Indices: 80130278--80131073 Score: 1057
Period size: 353 Copynumber: 2.3 Consensus size: 354
80130268 CTATCTCAAA
* * * * * *
80130278 AAGGCTAGT-GTTAACATCTGCTCCATTACCGATACATGAATATAATATTCACCATATTCGATCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCGCCATCTTCGATCT
* ** * * *
80130342 GCTCCACTACTGCTT-AGGGAGAT-AGATTTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGA
66 GCTCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGA
80130405 AAATAAGACTACAATCGCAAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAATGGCTAAAA
131 AAATAAGACTACAATCGCAAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAATGGCTAAAA
* ** * * *
80130470 TCTGCTCCATTGGTGATACATGTAGATAAGATTCGCCATCTTTGATCTGCTCCACCACTGTTTAG
196 CCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACCACTATTTAG
* * *
80130535 GGAGATAAGATCTTCAATATTCAGTCTACTTTCTTGCTACCTCAGAAAGATAAAACTCAATCTTC
261 GGAGATAAGATCTTCAATATTCAGTATACTTCCTTGCTACCTCAGAAAGATAAAACTCAATATTC
**
80130600 AACCTGCTCTCTTGCTACCGTAGAGAGAT
326 AACCCACTCTCTTGCTACCGTAGAGAGAT
* * *
80130629 AAGGCTAGTGGCTTAAATCTGCTCCATTTCCGATACATGAAGATAAGATTCGCCATCGTCGATCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCGCCATCTTCGATCT
** * *
80130694 GCTCTGCTGCAACTTCAGGGAGATAAGATCTTCAATGTTCAGTCTGCTTCCTTACTACCTTA-GA
66 GCTCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGA
* * *
80130758 AAGATAAGACT-CAATCTTC-AACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAA
131 AA-ATAAGACTACAATC-GCAAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAATGGCTAA
* ** *
80130821 AACCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCATCTTCGATCTGCTCTGCTACTATTT
194 AACCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACCACTATTT
* * * * * *
80130886 AGGGAGATAAGATCTTTAATCTTCAGTATGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATAT
259 AGGGAGATAAGATCTTCAATATTCAGTATACTTCCTTGCTACCTCAGAAAGATAAAACTCAATAT
80130951 TCAACCCACTCTCTTGCTACC-TCAGAGAGAT
324 TCAACCCACTCTCTTGCTACCGT-AGAGAGAT
* * * * * * * *
80130982 AAGGCTTGTGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTTGTCATCTTTGGTCT
1 AAGGCTAGTGGCTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCGCCATCTTCGATCT
80131047 GCTCCACTGCAACTTCAGGGAGATAAG
66 GCTCCACTGCAACTTCAGGGAGATAAG
80131074 GCTTGGGGCT
Statistics
Matches: 384, Mismatches: 55, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
351 9 0.02
352 57 0.15
353 277 0.72
354 41 0.11
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (354 bp):
AAGGCTAGTGGCTAAAATCTGCTCCATTACCGATACATGAAGATAAGATTCGCCATCTTCGATCT
GCTCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGA
AAATAAGACTACAATCGCAAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAATGGCTAAAA
CCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACCACTATTTAG
GGAGATAAGATCTTCAATATTCAGTATACTTCCTTGCTACCTCAGAAAGATAAAACTCAATATTC
AACCCACTCTCTTGCTACCGTAGAGAGAT
Found at i:80131025 original size:44 final size:43
Alignment explanation
Indices: 80130977--80131114 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 43
80130967 CTACCTCAGA
*
80130977 GAGATAAGGCTTGTGGCTAAAATCTGCTCCATTGCTGATACATG
1 GAGATAAGGCTTGTGGCTTAAATCTGCTCCATTGC-GATACATG
** ** *** * * * *
80131021 GAGATAAGATTTGTCATCTTTGGTCTGCTCCACTGCAACTTCAGG
1 GAGATAAGGCTTGT-GGCTTAAATCTGCTCCATTGCGA-TACATG
*
80131066 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATG
1 GAGATAAGGCTTGTGGCTTAAATCTGCTCCATTG-CGATACATG
80131110 GAGAT
1 GAGAT
80131115 GAGAATCGCC
Statistics
Matches: 67, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
44 36 0.54
45 31 0.46
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
GAGATAAGGCTTGTGGCTTAAATCTGCTCCATTGCGATACATG
Found at i:80131137 original size:89 final size:89
Alignment explanation
Indices: 80130972--80131161 Score: 240
Period size: 89 Copynumber: 2.1 Consensus size: 89
80130962 TCTTGCTACC
* * * * *
80130972 TCAGAGAGATAAGGCTTGTGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTTGTCA
1 TCAGGGAGATAAGGCTTGGGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGAATCGTCA
** *
80131037 TCTTTGGTCTGCTCCACTGCAACT
66 TCTTTAATCTGCTCCACTACAACT
* * *
80131061 TCAGGGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATGAGAATCG-CC
1 TCAGGGAGATAAGGCTTGGGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGAATCGTCA
* *
80131125 TCTTTCAATCTGCTCCGCTACTACT
66 TCTTT-AATCTGCTCCACTACAACT
80131150 T-AGGGAGATAAG
1 TCAGGGAGATAAG
80131162 ACCTGTCTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
88 17 0.20
89 70 0.80
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (89 bp):
TCAGGGAGATAAGGCTTGGGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGAATCGTCA
TCTTTAATCTGCTCCACTACAACT
Found at i:80132258 original size:14 final size:14
Alignment explanation
Indices: 80132224--80132256 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
80132214 TGGCCTCTCA
80132224 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
80132238 TTTTTTC-TTTTTC
1 TTTTTTCTTTTTTC
80132251 TTTTTT
1 TTTTTT
80132257 TCATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:80132263 original size:14 final size:14
Alignment explanation
Indices: 80132219--80132256 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
80132209 CACCTTGGCC
80132219 TCTCATTTTTTCTTT
1 TCTC-TTTTTTCTTT
*
80132234 TTTCTTTTTTCTTT
1 TCTCTTTTTTCTTT
80132248 T-TCTTTTTT
1 TCTCTTTTTT
80132257 TCATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 11 0.50
15 3 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TCTCTTTTTTCTTT
Found at i:80132264 original size:7 final size:7
Alignment explanation
Indices: 80132224--80132256 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
80132214 TGGCCTCTCA
80132224 TTTTTTC
1 TTTTTTC
80132231 TTTTTTC
1 TTTTTTC
80132238 TTTTTTC
1 TTTTTTC
80132245 -TTTTTC
1 TTTTTTC
80132251 TTTTTT
1 TTTTTT
80132257 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:80132320 original size:54 final size:53
Alignment explanation
Indices: 80132260--80132417 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 53
80132250 CTTTTTTTCA
* * * * *
80132260 TTTTTATTGAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATCT
1 TTTTTATT-AGTCTTAAAGCGCCCTTTGCGAGTTTTCAATTTGGCCCTTTATAT
* * * *
80132314 TTTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATAT
1 TTTTTATTAG-TCTTAAAGCGCCCTTTGCGAGTTTTCAATTTGGCCCTTTATAT
*
80132368 TTTTTATTAGGTCTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTT
1 TTTTTATTA-GTCTTAAAGCGCCCTTTGCGAGTTTTCAATTTGGCCCTTT
80132418 TTTTTCTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 87 0.97
55 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.49
Consensus pattern (53 bp):
TTTTTATTAGTCTTAAAGCGCCCTTTGCGAGTTTTCAATTTGGCCCTTTATAT
Found at i:80133007 original size:14 final size:14
Alignment explanation
Indices: 80132973--80133005 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
80132963 TGGCCTCTCA
80132973 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
80132987 TTTTTTC-TTTTTC
1 TTTTTTCTTTTTTC
80133000 TTTTTT
1 TTTTTT
80133006 TCATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:80133012 original size:14 final size:14
Alignment explanation
Indices: 80132968--80133005 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
80132958 CACCTTGGCC
80132968 TCTCATTTTTTCTTT
1 TCTC-TTTTTTCTTT
*
80132983 TTTCTTTTTTCTTT
1 TCTCTTTTTTCTTT
80132997 T-TCTTTTTT
1 TCTCTTTTTT
80133006 TCATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 11 0.50
15 3 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TCTCTTTTTTCTTT
Found at i:80133013 original size:7 final size:7
Alignment explanation
Indices: 80132973--80133005 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
80132963 TGGCCTCTCA
80132973 TTTTTTC
1 TTTTTTC
80132980 TTTTTTC
1 TTTTTTC
80132987 TTTTTTC
1 TTTTTTC
80132994 -TTTTTC
1 TTTTTTC
80133000 TTTTTT
1 TTTTTT
80133006 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:80133144 original size:54 final size:53
Alignment explanation
Indices: 80133009--80133165 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 53
80132999 CTTTTTTTCA
* * * * *
80133009 TTTTTATT-GAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATC
1 TTTTTATTAG-GTCTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTATC
* * * * *
80133062 TTTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATAT
1 TTTTTATTAGGTCTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTAT-C
80133116 TTTTTATTAGGTCTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTT
1 TTTTTATTAGGTCTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTT
80133166 TTTTTCTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 41 0.47
54 47 0.53
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.48
Consensus pattern (53 bp):
TTTTTATTAGGTCTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTATC
Found at i:80133425 original size:748 final size:749
Alignment explanation
Indices: 80131990--80133483 Score: 2981
Period size: 748 Copynumber: 2.0 Consensus size: 749
80131980 CGCCAACTAA
80131990 GTTTCTCTGTATGAACTTCTTGAATACCAATTTAAACTTGATATGTGTTTAGGAGATCAGAAGTA
1 GTTTCTCTGTATGAACTTCTTGAATACCAATTTAAACTTGATATGTGTTTAGGAGATCAGAAGTA
80132055 CTCTCTCAATGCCCCAAGATGCAACATACCCTTTCCTTGCTAATTTAGATATAGCAAGATCATCG
66 CTCTCTCAATGCCCCAAGATGCAACATACCCTTTCCTTGCTAATTTAGATATAGCAAGATCATCG
80132120 CCTTCCCACTTTAGATCAACATTTGAGCCACCCTTTTCGGGTTTTCAATTCAAATCCCATTTGGT
131 CCTTCCCACTTTAGATCAACATTTGAGCCACCCTTTTCGGGTTTTCAATTCAAATCCCATTTGGT
80132185 CTCAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCATTTTTTCTTTTTTCTTTTTTCTTTTT
196 CTCAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCATTTTTTCTTTTTTCTTTTTTCTTTTT
80132250 CTTTTTTTCATTTTTATTGAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATCTT
261 CTTTTTTTCATTTTTATTGAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATCTT
80132315 TTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATATTTTTTATTAGGT
326 TTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATATTTTTTATTAGGT
80132380 CTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTTTTTTCTTTTTTTTTTAAGAAAGTTTC
391 CTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTTTTTTCTTTTTTTTTTAAGAAAGTTTC
80132445 AAAATGCCCTTTGCGGGTTTTCACTTTAACCTCTTCCCCTCACTAGGTGTAGTACTTTTTGACTG
456 AAAATGCCCTTTGCGGGTTTTCACTTTAACCTCTTCCCCTCACTAGGTGTAGTACTTTTTGACTG
80132510 AATCCGAGTTCACTAGATTAGACAAGTTTTTTCCATCCATTTCAGCCAAGGTTAATGCTCCTCTG
521 AATCCGAGTTCACTAGATTAGACAAGTTTTTTCCATCCATTTCAGCCAAGGTTAATGCTCCTCTG
80132575 GAGAAAGCTTTCTTTACCACAGAAGGCCCCTCCCAATTTGGCATCCATTTTCCTTTGAAATCTTT
586 GAGAAAGCTTTCTTTACCACAGAAGGCCCCTCCCAATTTGGCATCCATTTTCCTTTGAAATCTTT
80132640 TTATATAGGAAGAATCTTTTTCAAAACCAAATCTCCCTCAGGAAACTCTCTTGGGTGAACCTTTT
651 TTATATAGGAAGAATCTTTTTCAAAACCAAATCTCCCTCAGGAAACTCTCTTGGGTGAACCTTTT
80132705 TGTCATAAGCCCGCATCATTCTTTTTTGATATGT
716 TGTCATAAGCCCGCATCATTCTTTTTTGATATGT
80132739 GTTTCTCTGTATGAACTTCTTGAATACCAATTTAAACTTGATATGTGTTTAGGAGATCAGAAGTA
1 GTTTCTCTGTATGAACTTCTTGAATACCAATTTAAACTTGATATGTGTTTAGGAGATCAGAAGTA
80132804 CTCTCTCAATGCCCCAAGATGCAACATACCCTTTCCTTGCTAATTTAGATATAGCAAGATCATCG
66 CTCTCTCAATGCCCCAAGATGCAACATACCCTTTCCTTGCTAATTTAGATATAGCAAGATCATCG
80132869 CCTTCCCACTTTAGATCAACATTTGAGCCACCCTTTTCGGGTTTTCAATTCAAATCCCATTTGGT
131 CCTTCCCACTTTAGATCAACATTTGAGCCACCCTTTTCGGGTTTTCAATTCAAATCCCATTTGGT
80132934 CTCAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCATTTTTTCTTTTTTCTTTTTTCTTTTT
196 CTCAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCATTTTTTCTTTTTTCTTTTTTCTTTTT
80132999 CTTTTTTTCATTTTTATTGAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATC-T
261 CTTTTTTTCATTTTTATTGAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATCTT
80133063 TTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATATTTTTTATTAGGT
326 TTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATATTTTTTATTAGGT
80133128 CTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTTTTTTCTTTTTTTTTTAAGAAAGTTTC
391 CTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTTTTTTCTTTTTTTTTTAAGAAAGTTTC
80133193 AAAATGCCCTTTGCGGGTTTTCACTTTAACCTCTTCCCCTCACTAGGTGTAGTACTTTTTGACTG
456 AAAATGCCCTTTGCGGGTTTTCACTTTAACCTCTTCCCCTCACTAGGTGTAGTACTTTTTGACTG
80133258 AATCCGAGTTCACTAGATTAGACAAGTTTTTTCCATCCATTTCAGCCAAGGTTAATGCTCCTCTG
521 AATCCGAGTTCACTAGATTAGACAAGTTTTTTCCATCCATTTCAGCCAAGGTTAATGCTCCTCTG
80133323 GAGAAAGCTTTCTTTACCACAGAAGGCCCCTCCCAATTTGGCATCCATTTTCCTTTGAAATCTTT
586 GAGAAAGCTTTCTTTACCACAGAAGGCCCCTCCCAATTTGGCATCCATTTTCCTTTGAAATCTTT
80133388 TTATATAGGAAGAATCTTTTTCAAAACCAAATCTCCCTCAGGAAACTCTCTTGGGTGAACCTTTT
651 TTATATAGGAAGAATCTTTTTCAAAACCAAATCTCCCTCAGGAAACTCTCTTGGGTGAACCTTTT
80133453 TGTCATAAGCCCGCATCATTCTTTTTTGATA
716 TGTCATAAGCCCGCATCATTCTTTTTTGATA
80133484 CATCTGACCA
Statistics
Matches: 745, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
748 422 0.57
749 323 0.43
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (749 bp):
GTTTCTCTGTATGAACTTCTTGAATACCAATTTAAACTTGATATGTGTTTAGGAGATCAGAAGTA
CTCTCTCAATGCCCCAAGATGCAACATACCCTTTCCTTGCTAATTTAGATATAGCAAGATCATCG
CCTTCCCACTTTAGATCAACATTTGAGCCACCCTTTTCGGGTTTTCAATTCAAATCCCATTTGGT
CTCAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCATTTTTTCTTTTTTCTTTTTTCTTTTT
CTTTTTTTCATTTTTATTGAGTCTTAAAGCGCCCTTTGTGGGTTTTTAATTTGGCTCTTTATCTT
TTTTATTAGATCTCAAAGTGCTCTTTGCGAGTTTTCACTTTGGCCCTTTATATTTTTTATTAGGT
CTTAAAGCGCCCTTTGCGAGTTTTCACTTTGGCCCTTTTTTTTCTTTTTTTTTTAAGAAAGTTTC
AAAATGCCCTTTGCGGGTTTTCACTTTAACCTCTTCCCCTCACTAGGTGTAGTACTTTTTGACTG
AATCCGAGTTCACTAGATTAGACAAGTTTTTTCCATCCATTTCAGCCAAGGTTAATGCTCCTCTG
GAGAAAGCTTTCTTTACCACAGAAGGCCCCTCCCAATTTGGCATCCATTTTCCTTTGAAATCTTT
TTATATAGGAAGAATCTTTTTCAAAACCAAATCTCCCTCAGGAAACTCTCTTGGGTGAACCTTTT
TGTCATAAGCCCGCATCATTCTTTTTTGATATGT
Found at i:80138771 original size:30 final size:30
Alignment explanation
Indices: 80138737--80138794 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
80138727 TCCTTAACTC
80138737 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
80138767 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAAATTACAATTTTGCCC
80138795 TTAGGCTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:80141986 original size:47 final size:47
Alignment explanation
Indices: 80141923--80142367 Score: 557
Period size: 47 Copynumber: 9.3 Consensus size: 47
80141913 CCCTTCGGGA
* *
80141923 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
80141970 CTTATCACATATATACACTTTCACATTCATCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATAT--A----CAC-TT--TCACATTCATCACATTGGCCATTCGGC
* * * *
80142026 CTTATCTCATATATACACTTTCACATTCATTACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
80142073 CTTATCACATATATACAGTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
80142120 CCTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
80142167 CCTATCACATATATAGACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
80142214 CCTATCACATATATATACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
80142261 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
80142308 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
80142355 CTTATCACATATA
1 CTTATCACATATA
80142368 CATATCTTGT
Statistics
Matches: 364, Mismatches: 25, Indels: 18
0.89 0.06 0.04
Matches are distributed among these distances:
47 315 0.87
49 3 0.01
50 3 0.01
53 3 0.01
54 3 0.01
56 37 0.10
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:80142004 original size:9 final size:9
Alignment explanation
Indices: 80141990--80142014 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
80141980 ATATACACTT
80141990 TCACATTCA
1 TCACATTCA
80141999 TCACATTCA
1 TCACATTCA
80142008 TCACATT
1 TCACATT
80142015 GGCCATTAGG
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (9 bp):
TCACATTCA
Found at i:80142030 original size:56 final size:56
Alignment explanation
Indices: 80141943--80142105 Score: 218
Period size: 56 Copynumber: 3.1 Consensus size: 56
80141933 TTATACACTT
* * *
80141943 TCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATTCATCACATTGGCCATTAGGTCTTATCACATATATACACTTTCACATTCA
*
80141999 TCACATTCATCACATTGGCCATTAGGTCTTATCTCATATATACACTTTCACA-T--
1 TCACATTCATCACATTGGCCATTAGGTCTTATCACATATATACACTTTCACATTCA
*
80142052 T--CA-T--T-ACATTGGCCATTAGGTCTTATCACATATATACAGTTTCACATTCA
1 TCACATTCATCACATTGGCCATTAGGTCTTATCACATATATACACTTTCACATTCA
80142102 TCAC
1 TCAC
80142106 GTTGGTCACT
Statistics
Matches: 96, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
47 39 0.41
48 2 0.02
50 2 0.02
51 2 0.02
52 1 0.01
53 1 0.01
55 1 0.01
56 48 0.50
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (56 bp):
TCACATTCATCACATTGGCCATTAGGTCTTATCACATATATACACTTTCACATTCA
Found at i:80142317 original size:22 final size:22
Alignment explanation
Indices: 80142289--80142364 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
80142279 TTTCACATTC
80142289 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
80142311 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
80142335 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
80142358 ATCACAT
1 ATCACAT
80142365 ATACATATCT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:80143783 original size:47 final size:47
Alignment explanation
Indices: 80143720--80144115 Score: 544
Period size: 47 Copynumber: 8.3 Consensus size: 47
80143710 CCCTTCGGGA
* *
80143720 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
80143767 CTTATCACATATATACACTTTCACATTCATCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATAT--A----CAC-TT--TCACATTCATCACATTGGCCATTCGGC
* *
80143823 CTTATCTCATATATACACTTTGACATTCATCACATTGGCCATT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
80143869 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
80143916 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
80143963 C-TATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
80144009 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
80144056 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
80144103 CTTATCACATATA
1 CTTATCACATATA
80144116 CATATCTTGT
Statistics
Matches: 317, Mismatches: 21, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
46 84 0.26
47 184 0.58
49 3 0.01
50 3 0.01
53 3 0.01
54 3 0.01
56 37 0.12
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:80143801 original size:9 final size:9
Alignment explanation
Indices: 80143787--80143811 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
80143777 ATATACACTT
80143787 TCACATTCA
1 TCACATTCA
80143796 TCACATTCA
1 TCACATTCA
80143805 TCACATT
1 TCACATT
80143812 GGCCATTAGG
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (9 bp):
TCACATTCA
Found at i:80143955 original size:93 final size:93
Alignment explanation
Indices: 80143796--80144115 Score: 480
Period size: 93 Copynumber: 3.4 Consensus size: 93
80143786 TTCACATTCA
* * * * * *
80143796 TCACATTCATCACATTGGCCATTAGGTCTTATCTCATATATACACTTTGACATTCATCACATTGG
1 TCACATTCATCACATTGGCCACTCGGCCCTATCACATATATACACTTTCACATTCATCACATTGG
80143861 CCATTGGCCTTATCACATATATACACTT
66 CCATTGGCCTTATCACATATATACACTT
* * * *
80143889 TCACATTCATCACGTTGGTCACTCGACCCTATCACATATATACACTTTCACATTCATCACGTTGG
1 TCACATTCATCACATTGGCCACTCGGCCCTATCACATATATACACTTTCACATTCATCACATTGG
* *
80143954 CCACTCGGCC-TATCACATATATATACTT
66 CCA-TTGGCCTTATCACATATATACACTT
*
80143982 TCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATACTTTCACATTCATCACATTGG
1 TCACATTCATCACATTGGCCACTCGGCCCTATCACATATATACACTTTCACATTCATCACATTGG
80144047 CCATTCGGCCTTATCACATATATACACTT
66 CCATT-GGCCTTATCACATATATACACTT
* *
80144076 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TCACATTCATCACATTGGCCACTCGGCCCTATCACATATA
80144116 CATATCTTGT
Statistics
Matches: 203, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
92 1 0.00
93 142 0.70
94 60 0.30
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (93 bp):
TCACATTCATCACATTGGCCACTCGGCCCTATCACATATATACACTTTCACATTCATCACATTGG
CCATTGGCCTTATCACATATATACACTT
Found at i:80144015 original size:140 final size:139
Alignment explanation
Indices: 80143796--80144115 Score: 478
Period size: 140 Copynumber: 2.3 Consensus size: 139
80143786 TTCACATTCA
* * * *
80143796 TCACATTCATCACATTGGCCATTAGGTCTTATCTCATATATACACTTTGACATTCATCACATTGG
1 TCACATTCATCACATTGGCCATTCGG-CCTATCACATATATACACTTTCACATTCATCACATTGG
* * * *
80143861 CCATTGGCCTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGACCCTATCACAT
65 CCATCGGCCCTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGACCCTATCACAT
80143926 ATATACACTT
130 ATATACACTT
* * *
80143936 TCACATTCATCACGTTGGCCACTCGGCCTATCACATATATATACTTTCACATTCATCACATTGGC
1 TCACATTCATCACATTGGCCATTCGGCCTATCACATATATACACTTTCACATTCATCACATTGGC
* * * *
80144001 CACTCGGCCCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT
66 CA-TCGGCCCTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGACCCTATCACAT
80144066 ATATACACTT
130 ATATACACTT
80144076 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TCACATTCATCACATTGGCCATTCGGCC-TATCACATATA
80144116 CATATCTTGT
Statistics
Matches: 161, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
139 37 0.23
140 113 0.70
141 11 0.07
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (139 bp):
TCACATTCATCACATTGGCCATTCGGCCTATCACATATATACACTTTCACATTCATCACATTGGC
CATCGGCCCTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGACCCTATCACATA
TATACACTT
Found at i:80144065 original size:22 final size:22
Alignment explanation
Indices: 80144037--80144112 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
80144027 TTTCACATTC
80144037 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
80144059 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
80144083 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
80144106 ATCACAT
1 ATCACAT
80144113 ATACATATCT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:80148223 original size:37 final size:36
Alignment explanation
Indices: 80148164--80148347 Score: 235
Period size: 37 Copynumber: 5.0 Consensus size: 36
80148154 AGCTCAGATG
* *
80148164 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
80148201 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
** *
80148237 TATTTTTCCACACGTAGTCATCGGGTCTTACCC-GAA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
* * *
80148273 ATATTTTTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 A-A-ATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
*
80148312 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
80148348 TATATTTCCA
Statistics
Matches: 131, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.01
36 5 0.04
37 121 0.92
38 3 0.02
39 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
Found at i:80148260 original size:74 final size:75
Alignment explanation
Indices: 80148165--80148357 Score: 261
Period size: 74 Copynumber: 2.6 Consensus size: 75
80148155 GCTCAGATGA
* *
80148165 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA-A-ATCTCCACACGTAGTCATCGGGTCT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA-AATATATCTCCACACGTAGTCATCGGGTCT
80148228 TACCCGGA-AT
65 TACCCGGACAT
* * * * *
80148238 ATTTTTCCACACGTAGTCATCGGGTCTTACCC-GAAATATTTTTCCACATGTAGTCATCGGGTCT
1 A-ATCTCCACACGTAGTCATCGGGTCTTACCCGGAAATATATCTCCACACGTAGTCATCGGGTCT
80148302 TACCCGGACAT
65 TACCCGGACAT
*
80148313 AATCTCCACACGTAGTCATCGGGTCTTACCCGG-AATATATTTCCA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAAATATATCTCCA
80148358 AGTTTCATGT
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
72 2 0.02
73 4 0.04
74 95 0.90
75 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (75 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGAAATATATCTCCACACGTAGTCATCGGGTCTT
ACCCGGACAT
Found at i:80148546 original size:48 final size:48
Alignment explanation
Indices: 80148493--80148732 Score: 399
Period size: 48 Copynumber: 5.0 Consensus size: 48
80148483 CCACACGTCC
* * * *
80148493 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
80148541 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
80148591 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
80148639 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
80148687 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
80148733 TTATCTTGTG
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 137 0.75
50 45 0.25
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Done.