Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 80 of 207
Found at i:23272497 original size:18 final size:18
Alignment explanation
Indices: 23272395--23272513 Score: 91
Period size: 18 Copynumber: 6.5 Consensus size: 18
23272385 GAAAACATAA
* *
23272395 TTTATTATTTTTAT-AAT
1 TTTATAATTTTTATGATT
* *
23272412 TTTATTATTTATTATGACT
1 TTTATAATTT-TTATGATT
* *
23272431 TTAATTAACTTTTAT-ATT
1 TTTA-TAATTTTTATGATT
* *
23272449 TTTATAAATTTTATAATT
1 TTTATAATTTTTATGATT
*
23272467 TTAATTAATTTTTAATGATT
1 TTTA-TAATTTTT-ATGATT
23272487 TTTATAATTTTTTATG-TT
1 TTTATAA-TTTTTATGATT
23272505 TTTATAATT
1 TTTATAATT
23272514 CTAGGATGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
17 21 0.25
18 24 0.29
19 22 0.26
20 17 0.20
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTATAATTTTTATGATT
Found at i:23278315 original size:63 final size:63
Alignment explanation
Indices: 23278246--23278399 Score: 204
Period size: 63 Copynumber: 2.4 Consensus size: 63
23278236 CAAACAGAGG
* *
23278246 GTTACACTGCCTGGACACACGCTTGTGTCC-CGACCTGTGTGACACAAAGACAATGAACAGTGA
1 GTTACACTGCCTAGACACACGCTCGTGTCCTCGACC-GTGTGACACAAAGACAATGAACAGTGA
* * * * *
23278309 GTTACACGGCCTAGACATACGCTCGTGTCCTGGTCCGTGTGACACTAAGACAATGAACAGTGA
1 GTTACACTGCCTAGACACACGCTCGTGTCCTCGACCGTGTGACACAAAGACAATGAACAGTGA
*
23278372 GTTACA-TGGCCTAGAAACACGCTCGTGT
1 GTTACACT-GCCTAGACACACGCTCGTGT
23278400 GAACCCTGCA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 76 0.96
64 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (63 bp):
GTTACACTGCCTAGACACACGCTCGTGTCCTCGACCGTGTGACACAAAGACAATGAACAGTGA
Found at i:23279016 original size:17 final size:18
Alignment explanation
Indices: 23278992--23279036 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
23278982 GAAGCAGAAG
* *
23278992 AAGAAAAAAGAAATGGGA
1 AAGAAAAAAGAAAAGGAA
23279010 AAGAAAAAAGAAAAGGAA
1 AAGAAAAAAGAAAAGGAA
23279028 AAGAAAAAA
1 AAGAAAAAA
23279037 ATGAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAGAAAAGGAA
Found at i:23281194 original size:12 final size:11
Alignment explanation
Indices: 23281164--23281238 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 11
23281154 CGACAAACGA
23281164 AAAGAAACAGAAG
1 AAAGAAA-A-AAG
23281177 -AAGAAAAAAG
1 AAAGAAAAAAG
*
23281187 AAATGAAAAATG
1 AAA-GAAAAAAG
23281199 --AGAAAAAA-
1 AAAGAAAAAAG
23281207 AAAGAAAAAAG
1 AAAGAAAAAAG
*
23281218 AAA-ATAAAA-
1 AAAGAAAAAAG
*
23281227 AAATAAAAAAG
1 AAAGAAAAAAG
23281238 A
1 A
23281239 GTAAGAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
9 9 0.18
10 22 0.43
11 7 0.14
12 13 0.25
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.05
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:23281194 original size:24 final size:24
Alignment explanation
Indices: 23281162--23281238 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
23281152 TACGACAAAC
* *
23281162 GAAAAGAAACA-GAAGAAGAAAAAA
1 GAAAAGAAAAATG-AGAAAAAAAAA
*
23281186 GAAATGAAAAATGAGAAAAAAAAA
1 GAAAAGAAAAATGAGAAAAAAAAA
* *
23281210 GAAAAAAGAAAAT-A-AAAAAATAA
1 GAAAAGA-AAAATGAGAAAAAAAAA
23281233 -AAAAGA
1 GAAAAGA
23281239 GTAAGAAAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 5 0.11
23 8 0.18
24 25 0.57
25 6 0.14
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.05
Consensus pattern (24 bp):
GAAAAGAAAAATGAGAAAAAAAAA
Found at i:23286594 original size:2 final size:2
Alignment explanation
Indices: 23286584--23286618 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
23286574 TCATAAAAAA
*
23286584 AT AT CAT AT AT AT AT AT AT AT CT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23286619 TTAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23293353 original size:33 final size:33
Alignment explanation
Indices: 23293311--23293465 Score: 222
Period size: 33 Copynumber: 4.7 Consensus size: 33
23293301 ATGCACGTGT
* *
23293311 GCCTTGCCCGTGTGGGCCAACACGCCTAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
* * *
23293344 GCCTTGCCCGTGTGGGTCTACAAGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
*
23293377 GCCTTGCCCGTGTGGGCCCATACGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
* *
23293410 GCCTTGCCTGTGTGGGCCCACATGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
*
23293443 GCCTTGCCCGTGT-GACCCACACG
1 GCCTTGCCCGTGTGGGCCCACACG
23293466 ATCTGGCCCA
Statistics
Matches: 108, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
32 8 0.07
33 100 0.93
ACGTcount: A:0.14, C:0.35, G:0.30, T:0.22
Consensus pattern (33 bp):
GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
Found at i:23296744 original size:35 final size:35
Alignment explanation
Indices: 23296654--23296744 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
23296644 AATATATACA
* * *
23296654 GGTTCACATGACTTATAGGCTTCGCATGTACCTAG
1 GGTTCACATGGCATATAGGCTTCGCAGGTACCTAG
* *
23296689 GGTTCACATGGCATAAAGGCTT-GCAGGTACTTAG
1 GGTTCACATGGCATATAGGCTTCGCAGGTACCTAG
** *
23296723 GGTTTGCATGGTCATGTAGGCT
1 GGTTCACATGG-CATATAGGCT
23296745 CACATTCCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
34 19 0.41
35 27 0.59
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (35 bp):
GGTTCACATGGCATATAGGCTTCGCAGGTACCTAG
Found at i:23299554 original size:27 final size:27
Alignment explanation
Indices: 23299518--23299592 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 27
23299508 GTTGTCATAA
*
23299518 ATTATAAAAATTATAAAATTATAAAAG
1 ATTATTAAAATTATAAAATTATAAAAG
* *
23299545 ATTATTAAAAACTTATAAAAATTCTAAAAT
1 ATTATT-AAAA-TTAT-AAAATTATAAAAG
23299575 ATTA-TAAAATTATAAAAT
1 ATTATTAAAATTATAAAAT
23299593 ACATGTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 5 0.12
27 9 0.21
28 8 0.19
29 5 0.12
30 15 0.36
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
ATTATTAAAATTATAAAATTATAAAAG
Found at i:23299587 original size:38 final size:37
Alignment explanation
Indices: 23299519--23299591 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
23299509 TTGTCATAAA
23299519 TTATAAAAATTATAAAATTATAAAAGATTATTAAAAAC
1 TTATAAAAATTATAAAATTATAAAAGATTA-TAAAAAC
*
23299557 TTATAAAAATTCTAAAA-TATTATAAA-ATTATAAAA
1 TTATAAAAATTATAAAATTA-TA-AAAGATTATAAAA
23299592 TACATGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 7 0.22
38 22 0.69
39 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (37 bp):
TTATAAAAATTATAAAATTATAAAAGATTATAAAAAC
Found at i:23299592 original size:8 final size:9
Alignment explanation
Indices: 23299516--23299591 Score: 93
Period size: 9 Copynumber: 8.2 Consensus size: 9
23299506 AAGTTGTCAT
23299516 AAATTATAA
1 AAATTATAA
23299525 AAATTAT-A
1 AAATTATAA
23299533 AAATTATAA
1 AAATTATAA
23299542 AAGATTATTAA
1 AA-ATTA-TAA
23299553 AAACTTATAA
1 AAA-TTATAA
*
23299563 AAATTCTAA
1 AAATTATAA
23299572 AATATTAT-A
1 AA-ATTATAA
23299581 AAATTATAA
1 AAATTATAA
23299590 AA
1 AA
23299592 TACATGTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
8 13 0.22
9 23 0.39
10 15 0.25
11 8 0.14
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:23300155 original size:18 final size:19
Alignment explanation
Indices: 23300120--23300158 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
23300110 AGTTTATTAG
23300120 AATTTTTTACAAGTATTTAT
1 AATTTTTTACAAG-ATTTAT
*
23300140 AATTTTTTATAA-ATTTAT
1 AATTTTTTACAAGATTTAT
23300158 A
1 A
23300159 TATCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTTTACAAGATTTAT
Found at i:23300184 original size:29 final size:28
Alignment explanation
Indices: 23300134--23300208 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 28
23300124 TTTTACAAGT
23300134 ATTTATAATTTTTTATAAATTTATATATC
1 ATTTATAATTTTTTATAAATTT-TATATC
* *
23300163 ATTTTTAA-TTTTTAGTATATTTTATAT-
1 ATTTATAATTTTTTA-TAAATTTTATATC
*
23300190 -TTTATTA-TTTTTATAAATT
1 ATTTATAATTTTTTATAAATT
23300209 ATTTGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 5 0.12
26 11 0.28
28 11 0.28
29 13 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTTATAATTTTTTATAAATTTTATATC
Found at i:23300203 original size:16 final size:17
Alignment explanation
Indices: 23300163--23300204 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23300153 TTTATATATC
23300163 ATTTTTA-ATTTTTAGT
1 ATTTTTATATTTTTAGT
*
23300179 ATATTTTATA-TTTTATT
1 AT-TTTTATATTTTTAGT
23300196 ATTTTTATA
1 ATTTTTATA
23300205 AATTATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 13 0.57
18 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTTTTAGT
Found at i:23300865 original size:16 final size:16
Alignment explanation
Indices: 23300823--23300865 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
23300813 TTATTTGGGA
23300823 TTGAATAATTTAAAAT
1 TTGAATAATTTAAAAT
* * **
23300839 TTTAATTATTTTGAAT
1 TTGAATAATTTAAAAT
23300855 TTGAATAATTT
1 TTGAATAATTT
23300866 CGAGTTCAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTGAATAATTTAAAAT
Found at i:23319329 original size:15 final size:15
Alignment explanation
Indices: 23319311--23319346 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23319301 TCAAAACTAA
23319311 TATTTTTAAAATATT
1 TATTTTTAAAATATT
*
23319326 TATTTTTATAATATT
1 TATTTTTAAAATATT
*
23319341 CATTTT
1 TATTTT
23319347 AAATTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTAAAATATT
Found at i:23324514 original size:20 final size:20
Alignment explanation
Indices: 23324490--23324535 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23324480 TAAAAAATAT
*
23324490 TAAAAAT-TACTAAATATTA
1 TAAAAATATTCTAAATATTA
*
23324509 TAAAAATATTGTAAATATTA
1 TAAAAATATTCTAAATATTA
23324529 TAAAAAT
1 TAAAAAT
23324536 TTAAATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATATTCTAAATATTA
Found at i:23324541 original size:37 final size:39
Alignment explanation
Indices: 23324476--23324579 Score: 110
Period size: 38 Copynumber: 2.7 Consensus size: 39
23324466 AAATTTAAAC
* *
23324476 ATTGTAAAAAATATTAAAAATTACTAAATAT-TATA-AAAAT
1 ATTGTAAATATTA-TAAAAATTA-TAAATATGTA-ACAAAAT
23324516 ATTGTAAATATTATAAAAATT-TAAATATGTAACAAAAT
1 ATTGTAAATATTATAAAAATTATAAATATGTAACAAAAT
23324554 ATTAGT-AAT-TTATATAAAATTATAAA
1 ATT-GTAAATATTATA-AAAATTATAAA
23324580 AAAAATAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
37 13 0.23
38 19 0.33
39 14 0.25
40 11 0.19
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (39 bp):
ATTGTAAATATTATAAAAATTATAAATATGTAACAAAAT
Found at i:23331401 original size:13 final size:13
Alignment explanation
Indices: 23331368--23331401 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23331358 ATATATTTGA
23331368 TTAATTTTAAAAT
1 TTAATTTTAAAAT
* *
23331381 ATATTTTTAAAAT
1 TTAATTTTAAAAT
23331394 TTAATTTT
1 TTAATTTT
23331402 TTTCTGACGC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAATTTTAAAAT
Found at i:23334656 original size:11 final size:11
Alignment explanation
Indices: 23334640--23334675 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23334630 TACATAAGTC
23334640 ATAAAAATAAA
1 ATAAAAATAAA
23334651 ATAAAAATAAA
1 ATAAAAATAAA
* *
23334662 ATACATATAAA
1 ATAAAAATAAA
23334673 ATA
1 ATA
23334676 TATTCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:23335860 original size:18 final size:18
Alignment explanation
Indices: 23335837--23335873 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23335827 TATAGTTTGA
23335837 TATTTGAATTATTCGAAT
1 TATTTGAATTATTCGAAT
*
23335855 TATTTGAGTTATTCGAAT
1 TATTTGAATTATTCGAAT
23335873 T
1 T
23335874 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTTGAATTATTCGAAT
Found at i:23336228 original size:3 final size:3
Alignment explanation
Indices: 23336220--23336271 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
23336210 ATAAGTAAGT
*
23336220 ATA ATA ATA ATA TATA AT- ATA ATA ATA A-A CTA ATA ATA ATA CAGTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA
23336266 ATA ATA
1 ATA ATA
23336272 TAAATAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23336247 original size:11 final size:11
Alignment explanation
Indices: 23336220--23336274 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
23336210 ATAAGTAAGT
23336220 ATAATAATAATA
1 ATAAT-ATAATA
23336232 TATAATATAATA
1 -ATAATATAATA
23336244 ATAA-ACTAATA
1 ATAATA-TAATA
* *
23336255 ATAATACAGTA
1 ATAATATAATA
23336266 ATAATATAA
1 ATAATATAA
23336275 ATAAACAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 1 0.03
11 23 0.64
12 7 0.19
13 5 0.14
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (11 bp):
ATAATATAATA
Found at i:23336257 original size:14 final size:14
Alignment explanation
Indices: 23336238--23336275 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23336228 AATATATAAT
23336238 ATAATAATAAACTA
1 ATAATAATAAACTA
* *
23336252 ATAATAATACAGTA
1 ATAATAATAAACTA
23336266 ATAAT-ATAAA
1 ATAATAATAAA
23336276 TAAACAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (14 bp):
ATAATAATAAACTA
Found at i:23336274 original size:19 final size:19
Alignment explanation
Indices: 23336224--23336284 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 19
23336214 GTAAGTATAA
* *
23336224 TAATAATAT-ATAATATAA
1 TAATAATATAATAATACAG
23336242 TAATAAACTAATAATAATACAG
1 TAAT-AA-T-ATAATAATACAG
23336264 TAATAATATAAATAA-ACAG
1 TAATAATAT-AATAATACAG
23336283 TA
1 TA
23336285 TTAACAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.11
19 10 0.28
20 7 0.19
21 4 0.11
22 11 0.31
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
TAATAATATAATAATACAG
Found at i:23337897 original size:100 final size:100
Alignment explanation
Indices: 23337748--23338050 Score: 464
Period size: 100 Copynumber: 3.0 Consensus size: 100
23337738 TCTCATTCTG
* * * * * * *
23337748 TTTTAACTGCAATGTCGAGGAAACAAGATTCGCCGTTGT-GACTTCAATCTGTTCCACTGCACCG
1 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCATTGTAG-CTTCAATCTGTTCCACTACACCG
* *
23337812 CCAGAGAAGTAAGATCCGCCATTGTGGCTTCAATAT
65 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATAT
* *
23337848 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCCTTGTAGCTTCAATCTGTTCCACTATACCGC
1 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCATTGTAGCTTCAATCTGTTCCACTACACCGC
*
23337913 CAGGGAAGTAAGATCCGTCGTTGTGGCTTCAATAT
66 CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATAT
*
23337948 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGC
1 TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCATTGTAGCTTCAATCTGTTCCACTACACCGC
*
23338013 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATAT
66 CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATAT
23338048 TTT
1 TTT
23338051 CCATTGTAAT
Statistics
Matches: 186, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 185 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (100 bp):
TTTTAATTGCAATGTCGGGGGAACCAGATCCGCCATTGTAGCTTCAATCTGTTCCACTACACCGC
CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATAT
Found at i:23338042 original size:50 final size:50
Alignment explanation
Indices: 23337772--23338045 Score: 192
Period size: 50 Copynumber: 5.5 Consensus size: 50
23337762 TCGAGGAAAC
* * *
23337772 AAGATTCGCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGAGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * ** * ** ** *
23337822 AAGATCCGCCATTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGGAA-C
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTGCACCG-CCAGGGAAGT
* * * **
23337872 CAGATCCGCCCTTGTAGCTTCAATCTGTTCCACTATACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * ** * ** ** *
23337922 AAGATCCGTCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGGAA-C
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTGCACCG-CCAGGGAAGT
* * * * *
23337972 CAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
*
23338022 AAGATTCGCCGTTGTGGCTTCAAT
1 AAGATCCGCCGTTGTGGCTTCAAT
23338046 ATTTTCCATT
Statistics
Matches: 154, Mismatches: 66, Indels: 8
0.68 0.29 0.04
Matches are distributed among these distances:
49 12 0.08
50 131 0.85
51 11 0.07
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (50 bp):
AAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
Found at i:23338966 original size:16 final size:16
Alignment explanation
Indices: 23338945--23338978 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23338935 AAAGTCTTAA
23338945 TTTAGACTCTTCATTC
1 TTTAGACTCTTCATTC
23338961 TTTAGACTCTTCATTC
1 TTTAGACTCTTCATTC
23338977 TT
1 TT
23338979 AGATTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTAGACTCTTCATTC
Found at i:23339672 original size:16 final size:15
Alignment explanation
Indices: 23339634--23339704 Score: 76
Period size: 14 Copynumber: 4.7 Consensus size: 15
23339624 TATTTTCCAA
23339634 TTTTGATTTT--TTT
1 TTTTGATTTTGATTT
23339647 ATTTTGATTTTGATTT
1 -TTTTGATTTTGATTT
23339663 TTTCTGATTTTTGATTT
1 TTT-TGA-TTTTGATTT
*
23339680 TTTTAATTTTG-TTT
1 TTTTGATTTTGATTT
23339694 TTTTAGATTTT
1 TTTT-GATTTT
23339705 TCTTTGATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
14 17 0.34
15 13 0.26
16 8 0.16
17 12 0.24
ACGTcount: A:0.14, C:0.01, G:0.10, T:0.75
Consensus pattern (15 bp):
TTTTGATTTTGATTT
Found at i:23340529 original size:25 final size:25
Alignment explanation
Indices: 23340479--23340544 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
23340469 AAGAAAATCC
*
23340479 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
23340504 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
23340529 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
23340545 TGAATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:23344657 original size:12 final size:10
Alignment explanation
Indices: 23344639--23344709 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
23344629 GCATATACGC
23344639 ATATATAAGTA
1 ATATATAA-TA
23344650 AGTATATAATA
1 A-TATATAATA
23344661 ATATATAAT-
1 ATATATAATA
23344670 ATA-ATAATA
1 ATATATAATA
23344679 A-ACTAATAATA
1 ATA-T-ATAATA
*
23344690 ATACAGTAATA
1 ATATA-TAATA
23344701 ATAATATAA
1 AT-ATATAA
23344710 ATAAACAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
8 6 0.12
9 4 0.08
10 9 0.18
11 21 0.42
12 10 0.20
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (10 bp):
ATATATAATA
Found at i:23344663 original size:3 final size:3
Alignment explanation
Indices: 23344655--23344706 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
23344645 AAGTAAGTAT
*
23344655 ATA ATA ATA TATA AT- ATA ATA ATA A-A CTA ATA ATA ATA CAGTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA
23344701 ATA ATA
1 ATA ATA
23344707 TAAATAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23344664 original size:22 final size:21
Alignment explanation
Indices: 23344639--23344730 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 21
23344629 GCATATACGC
23344639 ATATATAAGTA-AGTATATAATA
1 ATATATAA-TACAGTA-ATAATA
* *
23344661 ATATATAATATAATAATAAACTA
1 ATATATAATACAGTAAT-AA-TA
23344684 ATA-ATAATACAGTAATAATA
1 ATATATAATACAGTAATAATA
* *
23344704 ATATA-AATAAACAGTATTAACA
1 ATATATAAT--ACAGTAATAATA
23344726 ATATA
1 ATATA
23344731 ATAAAAAAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
20 8 0.14
21 7 0.12
22 39 0.66
23 5 0.08
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
ATATATAATACAGTAATAATA
Found at i:23344676 original size:8 final size:8
Alignment explanation
Indices: 23344653--23344709 Score: 55
Period size: 8 Copynumber: 6.8 Consensus size: 8
23344643 ATAAGTAAGT
23344653 ATATAATA
1 ATATAATA
23344661 ATAT-ATA
1 ATATAATA
23344668 ATATAATA
1 ATATAATA
23344676 ATA-AACTA
1 ATATAA-TA
23344684 ATAATAATA
1 AT-ATAATA
23344693 CAGTAATAATA
1 -A-T-ATAATA
23344704 ATATAA
1 ATATAA
23344710 ATAAACAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 9 0.21
8 18 0.42
9 4 0.09
10 4 0.09
11 8 0.19
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (8 bp):
ATATAATA
Found at i:23344685 original size:11 final size:13
Alignment explanation
Indices: 23344655--23344706 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
23344645 AAGTAAGTAT
23344655 ATAATAATATATA-
1 ATAATAATA-ATAC
*
23344668 AT-ATAATAATAA
1 ATAATAATAATAC
23344680 ACTAATAATAATAC
1 A-TAATAATAATAC
23344694 AGTAATAATAATA
1 A-TAATAATAATA
23344707 TAAATAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 7 0.21
13 3 0.09
14 21 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:23344689 original size:14 final size:14
Alignment explanation
Indices: 23344670--23344706 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23344660 AATATATAAT
23344670 ATAATAATAAACTA
1 ATAATAATAAACTA
* *
23344684 ATAATAATACAGTA
1 ATAATAATAAACTA
23344698 ATAATAATA
1 ATAATAATA
23344707 TAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAATAATAAACTA
Found at i:23345996 original size:30 final size:31
Alignment explanation
Indices: 23345929--23346005 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
23345919 TGAATCAATG
* *
23345929 TTAAAGTTTTATGTATACATTTGAACCATAA
1 TTAAAGTTTCATGTATACAATTGAACCATAA
* * *
23345960 TTAAAGTTTCATGTGTTCAATTGAACCA-AC
1 TTAAAGTTTCATGTATACAATTGAACCATAA
23345990 TTAAAG-TTCATGTATA
1 TTAAAGTTTCATGTATA
23346006 ATTTTGAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 8 0.21
30 7 0.18
31 24 0.62
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (31 bp):
TTAAAGTTTCATGTATACAATTGAACCATAA
Found at i:23350320 original size:43 final size:43
Alignment explanation
Indices: 23350258--23350567 Score: 415
Period size: 43 Copynumber: 7.2 Consensus size: 43
23350248 CGGAAAAAAT
* *
23350258 GCCGCTAAAGACAAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
23350301 ACCGCTAAAGACCAAGACCTTTAGCGGCGCTTATACCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
23350344 GCCGCTAAAGACCAAGACCTTTAGTGGCGCTTTTCCCACCAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * *
23350387 GCCGTTAAAGACTAGGTCCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
23350430 GCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTTCCCA-AAAA
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
23350472 GCCGCTAAAGACCAAAACCTTTAGCGACGCTTATACCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* **
23350515 GCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCCACAAAC
23350559 GCCGCTAAA
1 GCCGCTAAA
23350568 AACATAATAT
Statistics
Matches: 233, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
42 36 0.15
43 177 0.76
44 20 0.09
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:23351003 original size:37 final size:37
Alignment explanation
Indices: 23350953--23351028 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
23350943 TTTATCAAAC
23350953 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
1 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
23350990 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
1 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
23351027 TA
1 TA
23351029 CAATAGAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (37 bp):
TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
Found at i:23354440 original size:142 final size:141
Alignment explanation
Indices: 23354263--23354653 Score: 542
Period size: 142 Copynumber: 2.8 Consensus size: 141
23354253 GCGTTTGTGT
* *
23354263 AATTATTTTATTTGGAATAATACGAGGGAATTTAAAAAAATGGCGTTATTTTTTTAAAAGTAAAT
1 AATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAAT
*
23354328 TTTATTTTGTGGCGTTTTTTATAAAAACGTCGCTATTGCTTATCTATTGCGGCG-TTTTATACAC
66 TTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTATCTATTGCGGCGTTTTTATA-A-
23354392 AAACGCCGCAAAA
129 AAACGCCGCAAAA
23354405 AATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAAT
1 AATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAAT
* * *
23354470 TTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTCATTTATTGCGGCGTTTTTGTAAAA
66 TTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTATCTATTGCGGCGTTTTTATAAAA
* *
23354535 ATGCCGTAAAA
131 ACGCCGCAAAA
** ** *
23354546 AATTATTTTATTTGGAATAAAACGACACTGTTTTGCTATATAAAATGGCGCTA--TTTTTAAAA-
1 AATTATTTTATTTGGAATAAAACG--AGGGAATT--TA-AAAAAATGGCGCTATTTTTTTAAAAG
*
23354608 TAAA-ATTATTTTTGTGGCGTTTTTTA-AAAAACGCCGCTATTGCTTA
61 TAAATTTTA-TTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTA
23354654 CCTTTTGAAA
Statistics
Matches: 227, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
141 35 0.15
142 137 0.60
143 31 0.14
144 9 0.04
145 2 0.01
146 13 0.06
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (141 bp):
AATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAAT
TTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTATCTATTGCGGCGTTTTTATAAAA
ACGCCGCAAAA
Found at i:23355718 original size:40 final size:40
Alignment explanation
Indices: 23355632--23355718 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
23355622 TAACCTAAAT
* * * *
23355632 CCTAAATCCTAAACCCTAACTCAACCCTAAATCTCTAATC
1 CCTAAACCCTAAACCCTAACCCAACCCCAAATCTCTAACC
** *
23355672 TTTAAACCCTAAACCCTAACCCGACCCCAAAT-TCCTAACC
1 CCTAAACCCTAAACCCTAACCCAACCCCAAATCT-CTAACC
23355712 CCTAAAC
1 CCTAAAC
23355719 ATTATTTAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.37, C:0.40, G:0.01, T:0.22
Consensus pattern (40 bp):
CCTAAACCCTAAACCCTAACCCAACCCCAAATCTCTAACC
Found at i:23357714 original size:62 final size:62
Alignment explanation
Indices: 23357626--23357744 Score: 154
Period size: 62 Copynumber: 1.9 Consensus size: 62
23357616 ATAGAAAATT
* *
23357626 ATAAAAAAAATATTATAAATGAAATTTTTTAAAAAATTAGAAAA-CATTAAAAATTATTTAAA
1 ATAAAAAAAATATTAAAAATGAAATTTTTTAAAAAA-TAGAAAAGCATAAAAAATTATTTAAA
* *
23357688 ATAAAAAAAAT-TGTAAAAAGTG-AATTTTTTAAAATATAGAAAAGCGTAAAAAATTAT
1 ATAAAAAAAATAT-TAAAAA-TGAAATTTTTTAAAAAATAGAAAAGCATAAAAAATTAT
23357745 AAAAATATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
61 8 0.16
62 40 0.80
63 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (62 bp):
ATAAAAAAAATATTAAAAATGAAATTTTTTAAAAAATAGAAAAGCATAAAAAATTATTTAAA
Found at i:23357737 original size:33 final size:33
Alignment explanation
Indices: 23357677--23357739 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
23357667 AAACATTAAA
**
23357677 AATTATTTAAAATAAAAAAAATTGTAAAAAGTG
1 AATTATTTAAAATAAAAAAAAGCGTAAAAAGTG
* * *
23357710 AATTTTTTAAAATATAGAAAAGCGTAAAAA
1 AATTATTTAAAATAAAAAAAAGCGTAAAAA
23357740 ATTATAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (33 bp):
AATTATTTAAAATAAAAAAAAGCGTAAAAAGTG
Found at i:23357748 original size:9 final size:9
Alignment explanation
Indices: 23357736--23357843 Score: 53
Period size: 9 Copynumber: 11.6 Consensus size: 9
23357726 GAAAAGCGTA
23357736 AAAAATTAT
1 AAAAATTAT
23357745 AAAAA-TAT
1 AAAAATTAT
*
23357753 AGAAAATTACA
1 A-AAAATTA-T
23357764 AATAATATTAT
1 AA-AA-ATTAT
* *
23357775 TACAATTATT
1 AAAAATTA-T
*
23357785 CAAAAATAAT
1 -AAAAATTAT
23357795 AAAGAATTAT
1 AAA-AATTAT
**
23357805 AAAAAGAAT
1 AAAAATTAT
23357814 -AAAATTAT
1 AAAAATTAT
23357822 ATAAAA-TAT
1 A-AAAATTAT
*
23357831 AACAA-TAT
1 AAAAATTAT
23357839 AAAAA
1 AAAAA
23357844 ATGTTTACAA
Statistics
Matches: 75, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
8 20 0.27
9 24 0.32
10 18 0.24
11 9 0.12
12 4 0.05
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:23357750 original size:61 final size:61
Alignment explanation
Indices: 23357626--23357760 Score: 150
Period size: 62 Copynumber: 2.2 Consensus size: 61
23357616 ATAGAAAATT
* * *
23357626 ATAAAAAAAATATTATAAATGAAATTTTTTAAAAAATTAGAAAACATTAAAAATTATTTAAA
1 ATAAAAAAAAT-TTAAAAATGAAATTTTTTAAAAAATTAGAAAACATAAAAAATTATTAAAA
* *
23357688 ATAAAAAAAATTGTAAAAAGTG-AATTTTTTAAAATA-TAGAAAAGCGTAAAAAATTA-TAAAA
1 ATAAAAAAAATT-TAAAAA-TGAAATTTTTTAAAAAATTAGAAAA-CATAAAAAATTATTAAAA
* *
23357749 ATATAGAAAATT
1 ATAAAAAAAATT
23357761 ACAAATAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 22 0.35
62 39 0.62
63 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (61 bp):
ATAAAAAAAATTTAAAAATGAAATTTTTTAAAAAATTAGAAAACATAAAAAATTATTAAAA
Found at i:23357832 original size:17 final size:17
Alignment explanation
Indices: 23357739--23357843 Score: 61
Period size: 18 Copynumber: 5.6 Consensus size: 17
23357729 AAGCGTAAAA
*
23357739 AATTATAAAAATATAGAA
1 AATTATAAAAATATA-AC
*
23357757 AATTACAAATAATATTATTAC
1 AATTATAAA-AATA-TA--AC
*
23357778 AATTATTCAAAAATAATAAAG
1 AATTA-T-AAAAAT-AT-AAC
*
23357799 AATTATAAAAAGAATAA-
1 AATTATAAAAA-TATAAC
23357816 AATTATATAAAATATAAC
1 AATTATA-AAAATATAAC
23357834 AA-TATAAAAA
1 AATTATAAAAA
23357844 ATGTTTACAA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
16 4 0.06
17 15 0.21
18 16 0.23
19 11 0.16
20 3 0.04
21 12 0.17
22 4 0.06
23 5 0.07
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (17 bp):
AATTATAAAAATATAAC
Found at i:23357844 original size:17 final size:17
Alignment explanation
Indices: 23357737--23357845 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
23357727 AAAAGCGTAA
*
23357737 AAAATTATAAAAATATAG
1 AAAATTATAAAAA-ATAT
*
23357755 AAAATTACAAATAATATTATT
1 AAAATTATAAA-AA-A-TA-T
* *
23357776 ACAATTATTCAAAAATAAT
1 AAAATTA-TAAAAAAT-AT
23357795 AAAGAATTATAAAAAGA-AT
1 -AA-AATTATAAAAA-ATAT
*
23357814 AAAATTATATAAAATAT
1 AAAATTATAAAAAATAT
23357831 AACAA-TATAAAAAAT
1 AA-AATTATAAAAAAT
23357846 GTTTACAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 21
0.71 0.09 0.21
Matches are distributed among these distances:
16 1 0.01
17 23 0.32
18 14 0.19
19 8 0.11
20 10 0.14
21 14 0.19
22 2 0.03
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:23366553 original size:41 final size:41
Alignment explanation
Indices: 23366505--23366622 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 41
23366495 TGATTGAATG
* * * *
23366505 TTTCAGACTTTATGTCTAGCAGGTTTGATGCTGGTGAAATA
1 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
23366546 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
1 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
* * * * * *
23366587 ATTCGGACTATAAGTCTAGCAGGCTAAAAGCCGGTG
1 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTG
23366623 TACTGAACAG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (41 bp):
TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
Found at i:23366812 original size:67 final size:67
Alignment explanation
Indices: 23366735--23366952 Score: 255
Period size: 63 Copynumber: 3.2 Consensus size: 67
23366725 TTTAAGAACA
* * * *
23366735 TGTATATACATTCGGTGATAATACTTGTTAGGCATATATATATGCATTCAGCTATTTATGTTTAA
1 TGTATATACATTCGGTGATAATATTTGTTAAGCATATATATATGCATTCGGCTATTCATGTTTAA
23366800 AG
66 AG
* *
23366802 TGTATATACATTCGGTGATAATATTTGTTATG--TGTATA-A-GCATTCGGCTATTCATGTTTAA
1 TGTATATACATTCGGTGATAATATTTGTTAAGCATATATATATGCATTCGGCTATTCATGTTTAA
23366863 AG
66 AG
* * * *
23366865 TTTATATACATTTGATGATAATATTTGTTAAGCATATATGTATATACACATTCGGCTATTCATGT
1 TGTATATACATTCGGTGATAATATTTGTTAAGCATATA--TATAT--GCATTCGGCTATTCATG-
*
23366930 TTTAAAT
61 TTTAAAG
*
23366937 TGTATATGCATTCGGT
1 TGTATATACATTCGGT
23366953 TTTAAGTGTT
Statistics
Matches: 126, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
63 50 0.40
64 1 0.01
65 8 0.06
67 32 0.25
68 1 0.01
71 16 0.13
72 18 0.14
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (67 bp):
TGTATATACATTCGGTGATAATATTTGTTAAGCATATATATATGCATTCGGCTATTCATGTTTAA
AG
Found at i:23366814 original size:31 final size:30
Alignment explanation
Indices: 23366773--23366876 Score: 77
Period size: 31 Copynumber: 3.3 Consensus size: 30
23366763 TAGGCATATA
*
23366773 TATATGCATTCAGCTATTTATGTTTAAAGTG
1 TATATACATTC-GCTATTTATGTTTAAAGTG
* * * *
23366804 TATATACATTCGGTGATAATAT-TTGTTATGTG
1 TATATACATTCGCT-AT-TTATGTT-TAAAGTG
* *
23366836 TATA-AGCATTCGGCTATTCATGTTTAAAGTT
1 TATATA-CATTC-GCTATTTATGTTTAAAGTG
23366867 TATATACATT
1 TATATACATT
23366877 TGATGATAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
30 2 0.04
31 29 0.53
32 22 0.40
33 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (30 bp):
TATATACATTCGCTATTTATGTTTAAAGTG
Found at i:23373305 original size:16 final size:16
Alignment explanation
Indices: 23373280--23373365 Score: 52
Period size: 17 Copynumber: 5.1 Consensus size: 16
23373270 TTTTATATAT
23373280 ATTTTTATAT-TTTTA
1 ATTTTTATATATTTTA
*
23373295 ATTTATTATATATTTTT
1 ATTT-TTATATATTTTA
*
23373312 ATGCTTCTTACAATATTTT-
1 AT--TT-TTA-TATATTTTA
**
23373331 A-TAATATATATTTTAA
1 ATTTTTATATATTTT-A
23373347 ATTTTTATATACTTTTA
1 ATTTTTATATA-TTTTA
23373364 AT
1 AT
23373366 AAATTTGTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
14 7 0.13
15 6 0.11
16 8 0.15
17 16 0.30
18 4 0.07
19 6 0.11
20 7 0.13
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (16 bp):
ATTTTTATATATTTTA
Found at i:23373381 original size:17 final size:17
Alignment explanation
Indices: 23373359--23373397 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23373349 TTTTATATAC
* **
23373359 TTTTAATAAATTTGTAT
1 TTTTAAAAAATTCATAT
23373376 TTTTAAAAAATTCATAT
1 TTTTAAAAAATTCATAT
23373393 TTTTA
1 TTTTA
23373398 CAATTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTAAAAAATTCATAT
Found at i:23373493 original size:19 final size:20
Alignment explanation
Indices: 23373469--23373514 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
23373459 AATTTTTTGC
23373469 AATTTTTTATCATTTAT-AT
1 AATTTTTTATCATTTATAAT
23373488 AATTTTTTATCATTTATAAT
1 AATTTTTTATCATTTATAAT
23373508 AATTTTT
1 AATTTTT
23373515 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTTTATCATTTATAAT
Found at i:23374533 original size:23 final size:23
Alignment explanation
Indices: 23374505--23374549 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23374495 GTTCAAAATT
*
23374505 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
23374528 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
23374550 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:23374636 original size:24 final size:24
Alignment explanation
Indices: 23374598--23374849 Score: 150
Period size: 24 Copynumber: 10.8 Consensus size: 24
23374588 TGAATTGGAT
* *
23374598 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
23374623 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
23374647 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
23374667 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
23374692 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
23374716 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
23374737 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
23374761 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
23374784 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* * *
23374807 AATTAAAAATAATAAAACATGATA
1 AATTTAAAATAATAATATATGATA
*
23374831 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
23374850 CAATACACTT
Statistics
Matches: 172, Mismatches: 39, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
20 5 0.03
21 13 0.08
22 16 0.09
23 51 0.30
24 75 0.44
25 12 0.07
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:23374694 original size:69 final size:69
Alignment explanation
Indices: 23374620--23374881 Score: 194
Period size: 69 Copynumber: 3.8 Consensus size: 69
23374610 ATAATATATA
* * *
23374620 ATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-AATTCT-AGAATA-AT
1 ATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATATTAATGATAAATT-TGA-AATAGAT
*
23374681 CATACGTG
63 -ATACATG
** * *
23374689 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
1 ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
23374754 CATG
66 CATG
** * * * * **
23374758 ATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTAAAAATA-ATA
1 ATAAATTTAAAATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATTTGAAATAGAT-
*
23374821 AAACATG
63 ATACATG
* * * * * * *
23374828 ATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATTT
1 ATAAATTTAAAATAATAATACATAATAAATTTA-AAAATATTAATGATAAATTT
23374882 AATAATAGTA
Statistics
Matches: 154, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
68 9 0.06
69 69 0.45
70 67 0.44
71 9 0.06
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
CATG
Found at i:23374866 original size:70 final size:68
Alignment explanation
Indices: 23374687--23374889 Score: 176
Period size: 70 Copynumber: 2.9 Consensus size: 68
23374677 TAATCATACG
* * * * * **
23374687 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATA
1 TGATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTAAAAATAGATA
*
23374752 TACA
65 AACA
* ** *
23374756 TGATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTAAAAATA-A
1 TGATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTAAAAATAGA
23374819 TAAAACA
63 T-AAACA
* * * *
23374826 TGATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATTTAATAATAG
1 TGATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGA-TAAATTAAAAATAG
23374890 TAAGTATAAA
Statistics
Matches: 106, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
68 9 0.08
69 21 0.20
70 57 0.54
71 19 0.18
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (68 bp):
TGATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTAAAAATAGATAA
ACA
Found at i:23375703 original size:22 final size:22
Alignment explanation
Indices: 23375678--23375725 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
23375668 TATAAATTAA
23375678 ATCTT-TAAGATTACAAAATCTT
1 ATCTTCTAAGATTAC-AAATCTT
* *
23375700 ATCTTCTAAGATTGCATATCTT
1 ATCTTCTAAGATTACAAATCTT
23375722 ATCT
1 ATCT
23375726 AAGATTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (22 bp):
ATCTTCTAAGATTACAAATCTT
Found at i:23376065 original size:44 final size:45
Alignment explanation
Indices: 23376014--23376108 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 45
23376004 AGGCTCACTT
* *
23376014 TCTTCAACCTACTCCATTGCAACTTCAGGGAGATAAGATT-GATA
1 TCTTCAACCGACTCCACTGCAACTTCAGGGAGATAAGATTGGATA
* * * *
23376058 TCTTCAACCGGCTCCACTGTAACTTCAGGGAGATAAGGTTGGTTA
1 TCTTCAACCGACTCCACTGCAACTTCAGGGAGATAAGATTGGATA
23376103 TCTTCA
1 TCTTCA
23376109 GTCTTTAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
TCTTCAACCGACTCCACTGCAACTTCAGGGAGATAAGATTGGATA
Found at i:23376554 original size:169 final size:167
Alignment explanation
Indices: 23376258--23376749 Score: 653
Period size: 169 Copynumber: 2.9 Consensus size: 167
23376248 TTTTTCAATT
* * * *
23376258 TTAACGCCAAGGAGATGAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTACAACACCAGGGAA
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACCAGGGAA
* * *
23376323 ACCAGATTTGCTACCTTTAGCCTTAATCTGTTCCACTGTAATGCAAAAGAGATAGGATTCGCTGC
66 ACAAGATTCGCTACCTTTAG-CTTAATCTGTTCCACTATAATGC-AAAGAGATAGGATTCGCTGC
23376388 CCACAGCTTTAATCCGCTCCACTTCAGCTATTCCAAGTC
129 CCACAGCTTTAATCCGCTCCACTTCAGCTATTCCAAGTC
* * * * *
23376427 TTAATGCCAGGGAGATAAGATTCGCTGCCCT-ATGCTCTAATCTGCTCCACTGCAACGCTAGGGA
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCA-GCTTTAATCTGCTCCGCTGCAACACCAGGGA
*
23376491 AACAAGATTCGCTACCTTTAGCTTCAATCTGTTCCACTATAATGTCAAAGAGTTAGGATTCGCTG
65 AACAAGATTCGCTACCTTTAGCTT-AATCTGTTCCACTATAATG-CAAAGAGATAGGATTCGCTG
* * ** * *
23376556 TCCGCAGCTTTAATCTACTCAACCTCAGCTATTCCAAGTC
128 CCCACAGCTTTAATCCGCTCCACTTCAGCTATTCCAAGTC
* * * *
23376596 TTAACACCAGGGAGATAAGATTCGCTGCGCTCAGCTTTAGTTTGCTCCGCTGCAACACCAGGGAA
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACCAGGGAA
* * * * *
23376661 ATAAGATTCACTACCTTTAGCTTTAATCTGTTCCAATATAAGGCCAAATAGATAGGATTCGCTGC
66 ACAAGATTCGCTACCTTTAGC-TTAATCTGTTCCACTATAATG-CAAAGAGATAGGATTCGCTGC
*
23376726 CCACAGTTTTAATCCGCTCCACTT
129 CCACAGCTTTAATCCGCTCCACTT
23376750 TAGCATTAAC
Statistics
Matches: 276, Mismatches: 42, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
168 4 0.01
169 268 0.97
170 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (167 bp):
TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACCAGGGAA
ACAAGATTCGCTACCTTTAGCTTAATCTGTTCCACTATAATGCAAAGAGATAGGATTCGCTGCCC
ACAGCTTTAATCCGCTCCACTTCAGCTATTCCAAGTC
Found at i:23377033 original size:45 final size:46
Alignment explanation
Indices: 23376982--23377117 Score: 168
Period size: 45 Copynumber: 3.0 Consensus size: 46
23376972 CGTCGTTTTT
** * *
23376982 GATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 GATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * **
23377028 G-TCTGCTCCGCTACCAATACAGGAAGACAAGATCTAATATCTTC-
1 GATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* *
23377072 GATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCA
1 GATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
23377118 ATTCACTCTA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 72 0.97
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (46 bp):
GATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
Found at i:23377310 original size:16 final size:18
Alignment explanation
Indices: 23377289--23377322 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
23377279 GCATGAATGC
23377289 AGAATG-TCATT-TTTTT
1 AGAATGATCATTCTTTTT
23377305 AGAATGATCATTCTTTTT
1 AGAATGATCATTCTTTTT
23377323 CACTTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (18 bp):
AGAATGATCATTCTTTTT
Found at i:23378405 original size:6 final size:6
Alignment explanation
Indices: 23378394--23378418 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23378384 TTTTTTTCCA
23378394 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
23378419 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:23381857 original size:8 final size:8
Alignment explanation
Indices: 23381844--23381870 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
23381834 AGTTGATTAA
23381844 TTAATGTC
1 TTAATGTC
23381852 TTAATGTC
1 TTAATGTC
23381860 TTAATGTC
1 TTAATGTC
23381868 TTA
1 TTA
23381871 CTTTAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (8 bp):
TTAATGTC
Found at i:23382455 original size:23 final size:23
Alignment explanation
Indices: 23382427--23382471 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23382417 ATTCAAAATT
*
23382427 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
23382450 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
23382472 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:23382646 original size:24 final size:24
Alignment explanation
Indices: 23382584--23382771 Score: 124
Period size: 24 Copynumber: 8.0 Consensus size: 24
23382574 AAAAATTTTG
* *
23382584 ATGAT-AATTCTAGAATAATCATAT
1 ATGATAAATT-TAAAATAATAATAT
* * *
23382608 GTGAT-AATTCCAAAATAATAGTAT
1 ATGATAAATT-TAAAATAATAATAT
* *
23382632 ATAATAAATTT-AAA-AATATTA-
1 ATGATAAATTTAAAATAATAATAT
* *
23382653 ATGATAAATTTGAAATAGAT-ATAC
1 ATGATAAATTTAAAATA-ATAATAT
**
23382677 ATGATAAATTTAAAATAATGTTA-
1 ATGATAAATTTAAAATAATAATAT
** *
23382700 ACAATGAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAATAATAT
* *
23382724 -TGATAAA-TTACAAATAATAAAAC
1 ATGATAAATTTA-AAATAATAATAT
*
23382747 ATGATAAATCTAAAATAATAATAT
1 ATGATAAATTTAAAATAATAATAT
23382771 A
1 A
23382772 CAATACACTT
Statistics
Matches: 128, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
21 10 0.08
22 12 0.09
23 40 0.31
24 60 0.47
25 6 0.05
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (24 bp):
ATGATAAATTTAAAATAATAATAT
Found at i:23382788 original size:70 final size:68
Alignment explanation
Indices: 23382609--23382802 Score: 167
Period size: 70 Copynumber: 2.8 Consensus size: 68
23382599 TAATCATATG
* * * * * * **
23382609 TGATAATTCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATA
1 TGATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTACAAATAGATA
*
23382674 TACA
65 AACA
* ** *
23382678 TGATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-A
1 TGATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTACAAATAGA
23382741 TAAAACA
63 T-AAACA
* * *
23382748 TGATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATT
1 TGATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGATAAATT
23382803 TAATAATAGT
Statistics
Matches: 99, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
68 9 0.09
69 20 0.20
70 62 0.63
71 8 0.08
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (68 bp):
TGATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTACAAATAGATAA
ACA
Found at i:23384623 original size:20 final size:20
Alignment explanation
Indices: 23384572--23384623 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
23384562 TTAATAATTT
* * *
23384572 ATAAGCCTAATGTATTATAG
1 ATAAGTCTAATATATTAGAG
*
23384592 AT-AGATCCAATATATTAGAG
1 ATAAG-TCTAATATATTAGAG
23384612 ATAAGTCTAATA
1 ATAAGTCTAATA
23384624 CATAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
ATAAGTCTAATATATTAGAG
Found at i:23384814 original size:21 final size:22
Alignment explanation
Indices: 23384768--23384814 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
23384758 AATGTAAGGT
*
23384768 TTGTTATTATGTTTTAATTTAG
1 TTGTTATTATGTGTTAATTTAG
23384790 -TGTTATTATTGTGTT-ATTT-G
1 TTGTTATTA-TGTGTTAATTTAG
23384810 TTGTT
1 TTGTT
23384815 TTAAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (22 bp):
TTGTTATTATGTGTTAATTTAG
Found at i:23389282 original size:36 final size:36
Alignment explanation
Indices: 23389211--23389282 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
23389201 TCGGAAAAGC
* *
23389211 TGTTTTTACATATATTAATAAATTTATATTTTAAAT
1 TGTTTTTACATATATTAACAAATTTATATTATAAAT
23389247 TGTTTTTACATATA-TAACAATGATTTAT-TTATAAAT
1 TGTTTTTACATATATTAACAA--ATTTATATTATAAAT
23389283 AAATAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 5 0.16
36 21 0.66
37 6 0.19
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (36 bp):
TGTTTTTACATATATTAACAAATTTATATTATAAAT
Found at i:23390529 original size:32 final size:32
Alignment explanation
Indices: 23390488--23390580 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
23390478 TGTCAATTAT
23390488 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
23390520 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
23390552 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
23390581 CAATATCTAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:23390604 original size:27 final size:27
Alignment explanation
Indices: 23390489--23390607 Score: 78
Period size: 32 Copynumber: 4.0 Consensus size: 27
23390479 GTCAATTATT
* *
23390489 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
* *
23390520 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 -TCAATATCTAACAAGATTAAAAC---AT-AA
*
23390552 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
23390580 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
23390607 T
1 T
23390608 AATTTCAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.02
27 23 0.28
28 2 0.02
29 2 0.02
32 54 0.65
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:23390615 original size:59 final size:62
Alignment explanation
Indices: 23390486--23390625 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 62
23390476 ATTGTCAATT
*
23390486 ATTTCAATATCCAACAAGCTTAAAACATAATAAATTCAATATCCAACAAGCTTAAAACATAATA
1 ATTTCAATATCCAACAAGCTTAAAAC--AATAAATTCAATATCCAACAAGATTAAAACATAATA
* * * *
23390550 AATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACATAATA
1 ATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCCAACAAGATT-AAAACATAATA
*
23390609 ATTTCAAAATCCAACAA
1 ATTTCAATATCCAACAA
23390626 ACTAAAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
58 2 0.03
59 37 0.55
60 2 0.03
61 2 0.03
64 24 0.36
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (62 bp):
ATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCCAACAAGATTAAAACATAATA
Found at i:23393765 original size:17 final size:17
Alignment explanation
Indices: 23393743--23393795 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
23393733 TCTTCAACAG
23393743 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
23393760 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
*
23393773 ACAGATGCAAAATCTAA
1 ACAGATGCAAAATCCAA
23393790 ACAGAT
1 ACAGAT
23393796 TCTTCAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
13 9 0.31
15 6 0.21
17 14 0.48
ACGTcount: A:0.55, C:0.19, G:0.11, T:0.15
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:23393777 original size:30 final size:30
Alignment explanation
Indices: 23393738--23393796 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
23393728 AAGATTCTTC
*
23393738 AACAGACAGATGCAAAATCCAAACAGATTA
1 AACAAACAGATGCAAAATCCAAACAGATTA
*
23393768 AACAAACAGATGCAAAATCTAAACAGATT
1 AACAAACAGATGCAAAATCCAAACAGATT
23393797 CTTCAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.19, G:0.12, T:0.15
Consensus pattern (30 bp):
AACAAACAGATGCAAAATCCAAACAGATTA
Found at i:23394417 original size:9 final size:8
Alignment explanation
Indices: 23394382--23394475 Score: 66
Period size: 8 Copynumber: 11.2 Consensus size: 8
23394372 TATTAGAGAT
23394382 AATATAAA
1 AATATAAA
**
23394390 CTTATAAA
1 AATATAAA
23394398 AATATAAAAA
1 AATAT--AAA
23394408 AATCATAAA
1 AAT-ATAAA
23394417 AATATAAA
1 AATATAAA
23394425 AACTTATAAA
1 AA--TATAAA
*
23394435 AATA-ATA
1 AATATAAA
23394442 AAT-TAAA
1 AATATAAA
*
23394449 AATATATA
1 AATATAAA
* *
23394457 ATTACAAA
1 AATATAAA
23394465 AATTATAAA
1 AA-TATAAA
23394474 AA
1 AA
23394476 AAATCATTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
7 10 0.15
8 27 0.41
9 13 0.20
10 14 0.21
11 2 0.03
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (8 bp):
AATATAAA
Found at i:23394422 original size:27 final size:27
Alignment explanation
Indices: 23394392--23394475 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
23394382 AATATAAACT
*
23394392 TATAAAAATATAAAAAAATCATAAAAA
1 TATAAAAATATAAAAAAATAATAAAAA
23394419 TATAAAAACTTATAAAAATAATAAATTAAAAA
1 TATAAAAA--TATAAAAA-AAT-AA-TAAAAA
* * *
23394451 TAT-ATAAT-TACAAAAATTATAAAAA
1 TATAAAAATATAAAAAAATAATAAAAA
23394476 AAATCATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
27 11 0.23
28 5 0.10
29 9 0.19
30 3 0.06
31 4 0.08
32 9 0.19
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (27 bp):
TATAAAAATATAAAAAAATAATAAAAA
Found at i:23394436 original size:19 final size:19
Alignment explanation
Indices: 23394387--23394443 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
23394377 GAGATAATAT
23394387 AAACTTATAAAAATATAAA
1 AAACTTATAAAAATATAAA
* *
23394406 AAAATCATAAAAATAT-AA
1 AAACTTATAAAAATATAAA
23394424 AAACTTATAAAAATAATAAA
1 AAACTTATAAAAAT-ATAAA
23394444 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 14 0.44
19 16 0.50
20 2 0.06
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAACTTATAAAAATATAAA
Found at i:23394457 original size:18 final size:17
Alignment explanation
Indices: 23394394--23394454 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 17
23394384 TATAAACTTA
*
23394394 TAAAAATATAAAAAAAT
1 TAAAAATATAAATAAAT
*
23394411 CATAAAAATATAAA-AACT
1 --TAAAAATATAAATAAAT
23394429 TATAAAA-AT-AATAAAT
1 TA-AAAATATAAATAAAT
23394445 TAAAAATATA
1 TAAAAATATA
23394455 TAATTACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
15 6 0.17
16 11 0.31
17 4 0.11
18 3 0.08
19 12 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATATAAATAAAT
Found at i:23394473 original size:30 final size:32
Alignment explanation
Indices: 23394413--23394473 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
23394403 AAAAAAATCA
*
23394413 TAAAAATATAAAAACTTATAAAAATAATAAAT
1 TAAAAATATAAAAACTTACAAAAATAATAAAT
* *
23394445 TAAAAATAT-ATAA-TTACAAAAATTATAAA
1 TAAAAATATAAAAACTTACAAAAATAATAAA
23394474 AAAAATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 14 0.54
31 3 0.12
32 9 0.35
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (32 bp):
TAAAAATATAAAAACTTACAAAAATAATAAAT
Found at i:23399224 original size:19 final size:19
Alignment explanation
Indices: 23399147--23399252 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 19
23399137 TATTGTACCA
**
23399147 TTTATAAGTTTTTATGGTT
1 TTTATAAGTTTTTATAATT
* *
23399166 TTATATAA-TTTTTAAAATA
1 TT-TATAAGTTTTTATAATT
* *
23399185 TTT-TGATTTTTTA-AATTAAT
1 TTTATAAGTTTTTATAA-T--T
23399205 TTTATAAGTTTTTATGAATTT
1 TTTATAAGTTTTTAT-AA-TT
23399226 TTTATAAG-TTTTATAATT
1 TTTATAAGTTTTTATAATT
23399244 TTTATAAGT
1 TTTATAAGT
23399253 ATACATAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.06
18 18 0.26
19 13 0.19
20 14 0.20
21 17 0.24
23 4 0.06
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATT
Found at i:23399237 original size:9 final size:9
Alignment explanation
Indices: 23399204--23399252 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
23399194 TTTAAATTAA
23399204 TTTTATAAG
1 TTTTATAAG
*
23399213 TTTTTATGAATT
1 -TTTTAT-AA-G
23399225 TTTTATAAG
1 TTTTATAAG
*
23399234 TTTTATAAT
1 TTTTATAAG
23399243 TTTTATAAG
1 TTTTATAAG
23399252 T
1 T
23399253 ATACATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 17 0.52
10 8 0.24
11 8 0.24
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (9 bp):
TTTTATAAG
Found at i:23399240 original size:30 final size:28
Alignment explanation
Indices: 23399147--23399248 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 28
23399137 TATTGTACCA
* *
23399147 TTTATAAGTTTTTATGGTTTTATATAAT
1 TTTATAAGTTTTTATGATTTTTTATAAT
* *
23399175 TTT-TAAAATATTT-TGATTTTTTAAATTAAT
1 TTTAT-AAGTTTTTATGATTTTTT--A-TAAT
23399205 TTTATAAGTTTTTATGAATTTTTTATAAGT
1 TTTATAAGTTTTTATG-ATTTTTTATAA-T
23399235 TTTATAA-TTTTTAT
1 TTTATAAGTTTTTAT
23399249 AAGTATACAT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
27 8 0.13
28 9 0.15
29 11 0.18
30 22 0.37
31 3 0.05
32 7 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTATAAGTTTTTATGATTTTTTATAAT
Found at i:23399301 original size:18 final size:19
Alignment explanation
Indices: 23399263--23399316 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
23399253 ATACATAAAA
23399263 TTTAAATATTTTTATTAAT
1 TTTAAATATTTTTATTAAT
23399282 TTTAAATAGTTTTTA-T-AT
1 TTTAAATA-TTTTTATTAAT
23399300 TTT-AATGATTTTTATTA
1 TTTAAAT-ATTTTTATTA
23399317 GAAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.29
18 7 0.23
19 9 0.29
20 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTAAATATTTTTATTAAT
Found at i:23418081 original size:13 final size:13
Alignment explanation
Indices: 23418065--23418089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23418055 TTTACTTTTT
23418065 CTTAGTTAATTTA
1 CTTAGTTAATTTA
23418078 CTTAGTTAATTT
1 CTTAGTTAATTT
23418090 TTAGTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
CTTAGTTAATTTA
Found at i:23422662 original size:25 final size:25
Alignment explanation
Indices: 23422628--23422677 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23422618 CTGACTTTGT
23422628 TATCTTAGACTTTGAAGTAGATAAA
1 TATCTTAGACTTTGAAGTAGATAAA
23422653 TATCTTAGACTTTGAAGTAGATAAA
1 TATCTTAGACTTTGAAGTAGATAAA
23422678 GAGGTACCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
TATCTTAGACTTTGAAGTAGATAAA
Found at i:23425368 original size:21 final size:20
Alignment explanation
Indices: 23425342--23425380 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
23425332 GTTTTGATGA
23425342 AGGTATCGATACCTTAGGCCT
1 AGGTATCGATACC-TAGGCCT
23425363 AGGTATCGATACCTAGGC
1 AGGTATCGATACCTAGGC
23425381 TTATATTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (20 bp):
AGGTATCGATACCTAGGCCT
Found at i:23426259 original size:30 final size:28
Alignment explanation
Indices: 23426197--23426287 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
23426187 GGAAATAATG
23426197 ATAAGCACCAAAGTGCAAATTAATAACA
1 ATAAGCACCAAAGTGCAAATTAATAACA
* **
23426225 ATAAGCATCAAAGTGCAAATTTTTACAGCA
1 ATAAGCACCAAAGTGCAAATTAATA-A-CA
** * *
23426255 ATAAGCACCATTGTGCAAAATAAT-ACG
1 ATAAGCACCAAAGTGCAAATTAATAACA
23426282 ATAAGC
1 ATAAGC
23426288 GCGTTAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 7 0.14
28 23 0.45
29 1 0.02
30 20 0.39
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (28 bp):
ATAAGCACCAAAGTGCAAATTAATAACA
Found at i:23428992 original size:15 final size:16
Alignment explanation
Indices: 23428972--23429001 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23428962 TAACAACTAA
23428972 TATATAA-ATATATTT
1 TATATAATATATATTT
23428987 TATATAATATATATT
1 TATATAATATATATT
23429002 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:23438250 original size:33 final size:33
Alignment explanation
Indices: 23438198--23438261 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
23438188 AACAAGCAGT
* * *
23438198 GACAGTCTGGGCCTGAGCCCTATTCAGTAACAG
1 GACAGTCTGGACCTGAGCCCAATACAGTAACAG
* *
23438231 GACAGTGTGGACCTTAGCCCAATACAGTAAC
1 GACAGTCTGGACCTGAGCCCAATACAGTAAC
23438262 GGTGTGGGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (33 bp):
GACAGTCTGGACCTGAGCCCAATACAGTAACAG
Found at i:23438661 original size:27 final size:27
Alignment explanation
Indices: 23438617--23438859 Score: 264
Period size: 27 Copynumber: 9.1 Consensus size: 27
23438607 TATAACAGTT
*
23438617 ATTTTA-CCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
* *
23438643 ATTTTATCCTATGAGGGTATTTTAGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
*
23438670 ATTTTACCCTAT-AGGGGTATTTTGATC
1 ATTTTACCCTATGA-GGGTATTTTGGTC
** *
23438697 ATTTTACCCTATGAGGGTATTTAAGTT
1 ATTTTACCCTATGAGGGTATTTTGGTC
*
23438724 ATTTTACCCTAT-AGGGGTATTTTAGTC
1 ATTTTACCCTATGA-GGGTATTTTGGTC
* * **
23438751 ATTTTACCATATGAGAGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
* * *
23438778 ATTTTATCCTA--AGGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTTGGTC
*
23438803 ATTTTACCCTATGAGGGTATTTTGATC
1 ATTTTACCCTATGAGGGTATTTTGGTC
* *
23438830 A-TTTAACCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGAGGGTATTTTGGTC
23438856 ATTT
1 ATTT
23438860 ATTAACCTCT
Statistics
Matches: 185, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
25 21 0.11
26 31 0.17
27 131 0.71
28 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTTGGTC
Found at i:23438699 original size:54 final size:54
Alignment explanation
Indices: 23438617--23438859 Score: 293
Period size: 54 Copynumber: 4.6 Consensus size: 54
23438607 TATAACAGTT
* * *
23438617 ATTTTA-CCTAT-GAGGGTATTTCGGTCATTTTATCCTATGAGGGTATTTTAGTC
1 ATTTTACCCTATAG-GGGTATTTTGATCATTTTACCCTATGAGGGTATTTTAGTC
* *
23438670 ATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGAGGGTATTTAAGTT
1 ATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGAGGGTATTTTAGTC
* * *
23438724 ATTTTACCCTATAGGGGTATTTT-AGTCATTTTACCATATGAGAGTATTTCAGTC
1 ATTTTACCCTATAGGGGTATTTTGA-TCATTTTACCCTATGAGGGTATTTTAGTC
* *
23438778 ATTTTATCCTA-A-GGGTATTTCGATCATTTTACCCTATGAGGGTATTTT-GATC
1 ATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGAGGGTATTTTAG-TC
* * *
23438830 A-TTTAACCTATGGGGGTATTTTGGTCATTT
1 ATTTTACCCTATAGGGGTATTTTGATCATTT
23438860 ATTAACCTCT
Statistics
Matches: 165, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
51 9 0.05
52 33 0.20
53 24 0.15
54 98 0.59
55 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGAGGGTATTTTAGTC
Found at i:23439106 original size:19 final size:17
Alignment explanation
Indices: 23439065--23439107 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
23439055 CATCCGTGTG
23439065 GGGCCCACAAGCCCTTT
1 GGGCCCACAAGCCCTTT
* *
23439082 GAGCCCACACTGCCCATTT
1 GGGCCCACA-AGCCC-TTT
23439101 GGGCCCA
1 GGGCCCA
23439108 ACGTGGCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 9 0.43
ACGTcount: A:0.19, C:0.42, G:0.23, T:0.16
Consensus pattern (17 bp):
GGGCCCACAAGCCCTTT
Found at i:23441703 original size:25 final size:25
Alignment explanation
Indices: 23441661--23441723 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
23441651 TTAAGTGTTT
* *
23441661 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
23441686 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
23441711 TCAGGATATACTA
1 TCAGTATATACTA
23441724 TAAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:23442088 original size:18 final size:19
Alignment explanation
Indices: 23442067--23442105 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
23442057 TTTCAAAACA
23442067 TTATTC-ATTTACAAAT-TT
1 TTATTCAATTT-CAAATGTT
23442085 TTATTCAATTTCAAATGTT
1 TTATTCAATTTCAAATGTT
23442104 TT
1 TT
23442106 CTTATTACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTCAATTTCAAATGTT
Found at i:23444064 original size:13 final size:14
Alignment explanation
Indices: 23444041--23444071 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23444031 AGGAAGCCGC
23444041 GAAAAATTGAAGAA
1 GAAAAATTGAAGAA
23444055 GAAAAA-TGAAGAA
1 GAAAAATTGAAGAA
23444068 GAAA
1 GAAA
23444072 GTCAACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (14 bp):
GAAAAATTGAAGAA
Found at i:23448537 original size:30 final size:30
Alignment explanation
Indices: 23448494--23448553 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
23448484 GAGACAGTTT
* *
23448494 GAAAGCAGTTTCAGATCGACAGAAATCTTA
1 GAAAGAAGATTCAGATCGACAGAAATCTTA
23448524 GAAAGAAGATTCAGATCGACAGAAATCTTA
1 GAAAGAAGATTCAGATCGACAGAAATCTTA
23448554 TTGGGATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (30 bp):
GAAAGAAGATTCAGATCGACAGAAATCTTA
Found at i:23449924 original size:16 final size:16
Alignment explanation
Indices: 23449903--23449934 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23449893 ATATTAGGGG
23449903 CAAAAGTGTAAATTTT
1 CAAAAGTGTAAATTTT
*
23449919 CAAAAGTGTGAATTTT
1 CAAAAGTGTAAATTTT
23449935 GGATTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
CAAAAGTGTAAATTTT
Found at i:23452080 original size:49 final size:48
Alignment explanation
Indices: 23452020--23452116 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
23452010 CTTGTCTTGT
*
23452020 AGGCCGGATGTATTTGCTGCTCTCAAAAGGTTCAATGTACGACAATTAA
1 AGGCCGGATGTATTTGCTGCTCTCAAAAGGTTCAATGGACGAC-ATTAA
* * * *
23452069 AGGCTGGATGTATTTGTTGCTCTCAAGAGGTTCATTGGACGACATTAA
1 AGGCCGGATGTATTTGCTGCTCTCAAAAGGTTCAATGGACGACATTAA
23452117 GGAAGGGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 5 0.12
49 38 0.88
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (48 bp):
AGGCCGGATGTATTTGCTGCTCTCAAAAGGTTCAATGGACGACATTAA
Found at i:23453985 original size:42 final size:43
Alignment explanation
Indices: 23453924--23454033 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 43
23453914 AATTTGAGAT
* *
23453924 TTACGTGTATGACCATGTCTGGGACATTGACATCG-TATATGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGACATCGTTATATGA
* * * *
23453966 TTACGTGTAAGACCCTGTCTTGGACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGACATCGTTATATGA
*
23454009 TTACATGTAAGACCATGTCTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
23454034 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGACATCGTTATATGA
Found at i:23454022 original size:43 final size:42
Alignment explanation
Indices: 23453924--23454041 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
23453914 AATTTGAGAT
* * *
23453924 TTACGTGTATGACCATGTCTGGGACATTGACATCGTATATGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGA
* * *
23453966 TTACGTGTAAGACCCTGTCTTGGACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGA
*
23454009 TTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 TTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
23454042 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGA
Found at i:23460836 original size:13 final size:13
Alignment explanation
Indices: 23460818--23460842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23460808 GAATTAAAAT
23460818 GTGTGAAAATTTC
1 GTGTGAAAATTTC
23460831 GTGTGAAAATTT
1 GTGTGAAAATTT
23460843 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:23462015 original size:42 final size:43
Alignment explanation
Indices: 23461949--23462051 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
23461939 GATTTGAGAT
* * *
23461949 TTACGTGTAAGATCATGTCAAGGACATTGGCATCG-TATATGA
1 TTACGTGTAAGACCATATCAAGGACAGTGGCATCGTTATATGA
* * * *
23461991 TTACGTGTAAGACCCTATCTAGGACAGTGGCATTGTTATTTGA
1 TTACGTGTAAGACCATATCAAGGACAGTGGCATCGTTATATGA
* *
23462034 TTACATGTAAGATCATAT
1 TTACGTGTAAGACCATAT
23462052 TTGGGACGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (43 bp):
TTACGTGTAAGACCATATCAAGGACAGTGGCATCGTTATATGA
Found at i:23462065 original size:43 final size:43
Alignment explanation
Indices: 23461910--23462069 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 43
23461900 ATGAGAATCG
** * *
23461910 TGTAAGACCACGTCTAGGACGTTGGCGTTGATT-TGA-GATTTACG
1 TGTAAGACCATATCTAGGACGTTGGCATTG-TTAT-ATGA-TTACA
* * * * * *
23461954 TGTAAGATCATGTCAAGGACATTGGCATCG-TATATGATTACG
1 TGTAAGACCATATCTAGGACGTTGGCATTGTTATATGATTACA
* *
23461996 TGTAAGACCCTATCTAGGACAG-TGGCATTGTTATTTGATTACA
1 TGTAAGACCATATCTAGGAC-GTTGGCATTGTTATATGATTACA
* * *
23462039 TGTAAGATCATATTTGGGACGTTGGCATTGT
1 TGTAAGACCATATCTAGGACGTTGGCATTGT
23462070 ATGAGCTTTT
Statistics
Matches: 93, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 31 0.33
43 38 0.41
44 24 0.26
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATATCTAGGACGTTGGCATTGTTATATGATTACA
Found at i:23469087 original size:54 final size:53
Alignment explanation
Indices: 23469028--23469133 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
23469018 GGCTATAACA
23469028 GTCATTTCATCTCC-TAGAGGTATAAC-AGTCATTTTACCCTATGGGGGTATTTAG
1 GTCATTTCA-C-CCATAGAGGTATAACGA-TCATTTTACCCTATGGGGGTATTTAG
* * **
23469082 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTT
1 GTCATTTCACCC-ATAGAGGTATAACGATCATTTTACCCTATGGGGGTATTT
23469134 CAATCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
52 2 0.04
53 1 0.02
54 41 0.91
55 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (53 bp):
GTCATTTCACCCATAGAGGTATAACGATCATTTTACCCTATGGGGGTATTTAG
Found at i:23469141 original size:54 final size:54
Alignment explanation
Indices: 23469056--23469227 Score: 206
Period size: 54 Copynumber: 3.2 Consensus size: 54
23469046 GGTATAACAG
23469056 TCATTTTACCCTATGGGGGTATTT-AGGTCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCA-GTCATTTTACCCTATAGGGGTATTTCGA
* *
23469110 TCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGA
* * * * * * * *
23469164 TTATTTTACCATATGAGAGTATTTCGGCCATTTTACCTTAT-GGGAGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGG-GTATTTCGA
23469217 GTCATTTTACC
1 -TCATTTTACC
23469228 TATTTTGGGA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.03
54 98 0.96
55 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGA
Found at i:23469170 original size:81 final size:81
Alignment explanation
Indices: 23469056--23469227 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
23469046 GGTATAACAG
* * * *
23469056 TCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTAT-AGGGGTATTTCGATCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTAGGTCATTTTACCATATGA-GAGTATTTCGACCATTTTACC
*
23469120 CTATGGGGGTATTTCAA
65 CTATGGGAGTATTTCAA
* * * *
23469137 TCATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATGAGAGTATTTCGGCCATTTTACCT
1 TCATTTTACCCTATAGGGGTATTTAGGTCATTTTACCATATGAGAGTATTTCGACCATTTTACCC
* *
23469202 TATGGGAGTATTTTAG
66 TATGGGAGTATTTCAA
23469218 TCATTTTACC
1 TCATTTTACC
23469228 TATTTTGGGA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 78 0.99
82 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTAGGTCATTTTACCATATGAGAGTATTTCGACCATTTTACCC
TATGGGAGTATTTCAA
Found at i:23469228 original size:27 final size:26
Alignment explanation
Indices: 23469053--23469227 Score: 183
Period size: 27 Copynumber: 6.5 Consensus size: 26
23469043 AGAGGTATAA
23469053 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
23469080 -AGGTCATTTTACCCTATAGGGGTATTT
1 CA-GTCATTTTACCCTAT-GGGGTATTT
23469107 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTAT-GGGGTATTT
*
23469134 CAATCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
* * * *
23469161 CGGTTATTTTACCATATGAGAGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTT
* * *
23469188 CGGCCATTTTACCTTATGGGAGTATTT
1 CAGTCATTTTACCCTATGGG-GTATTT
*
23469215 TAGTCATTTTACC
1 CAGTCATTTTACC
23469228 TATTTTGGGA
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.03
27 122 0.97
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (26 bp):
CAGTCATTTTACCCTATGGGGTATTT
Found at i:23472594 original size:27 final size:27
Alignment explanation
Indices: 23472537--23472680 Score: 229
Period size: 27 Copynumber: 5.4 Consensus size: 27
23472527 GGGTATAATA
23472537 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
23472563 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
23472590 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
23472617 GTCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
23472644 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
23472670 GTCATTTTACC
1 GTCATTTTACC
23472681 TATTTTGGGG
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 35 0.33
27 72 0.67
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:23478260 original size:41 final size:41
Alignment explanation
Indices: 23478203--23478385 Score: 287
Period size: 41 Copynumber: 4.5 Consensus size: 41
23478193 GATAATTTAG
23478203 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAA
1 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAA
23478244 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAA
1 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAA
*
23478285 ACTTTACGTCTAGCAGGCTTGATGCTGAG-GAAATGTTTCAG
1 ACTTTACGTCTAGCAGGCTTGATGCTG-GTGAAATGTTTCAA
* ** * **
23478326 ACTTTACGTCTAGCAAGCTTGATGCCAGTGAAATATTTCGT
1 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAA
23478367 ACTTTACGTCTAGCAGGCT
1 ACTTTACGTCTAGCAGGCT
23478386 AATTGTCGGT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 130 0.98
42 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (41 bp):
ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAA
Found at i:23481517 original size:41 final size:40
Alignment explanation
Indices: 23481450--23481529 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 40
23481440 AATACCGACC
*
23481450 TTTTCATTGATATCTTATTTGTATATCGTCCTTTTCAACA
1 TTTTCATTGATATCTTATTTGGATATCGTCCTTTTCAACA
23481490 TTTTCATTTGATATCCTT-TTTGGATATCGTCCTTTTCAAC
1 TTTTCA-TTGATAT-CTTATTTGGATATCGTCCTTTTCAAC
23481530 CTATTATTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
40 6 0.16
41 28 0.76
42 3 0.08
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.53
Consensus pattern (40 bp):
TTTTCATTGATATCTTATTTGGATATCGTCCTTTTCAACA
Found at i:23481679 original size:70 final size:70
Alignment explanation
Indices: 23481589--23481722 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
23481579 ACCCGGCGCT
* * **
23481589 AGTCGGATAAACCAATGATAGGTGTGCTCTTTACTAGTCGGATAAACAT-ACAACATCTTGTGCC
1 AGTCGGATAAACCAAGGATAGGTGTGCCCTGCACTAGTCGGATAAAC-TGACAACATCTTGTGCC
23481653 AATGCA
65 AATGCA
* *
23481659 AGTCGGATAAACCGAGGATAGGTGTGCCCTGCACTAGTTGGATAAACTGACAACATCTTGTGCC
1 AGTCGGATAAACCAAGGATAGGTGTGCCCTGCACTAGTCGGATAAACTGACAACATCTTGTGCC
23481723 CAGTTCTAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 1 0.02
70 56 0.98
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (70 bp):
AGTCGGATAAACCAAGGATAGGTGTGCCCTGCACTAGTCGGATAAACTGACAACATCTTGTGCCA
ATGCA
Found at i:23484753 original size:37 final size:37
Alignment explanation
Indices: 23484695--23484789 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
23484685 CTTAGTGTCG
* * * *
23484695 TGGCGTGTTATTGATTAGATTAGCTTTTATGAGCGAT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCGAT
23484732 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCGAT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCGAT
23484769 TGGCGTGTT-TC-AGTTGGATTA
1 TGGCGTGTTATCGAG-TGGATTA
23484790 CTTGTGTACT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.04
36 9 0.17
37 42 0.79
ACGTcount: A:0.19, C:0.11, G:0.31, T:0.40
Consensus pattern (37 bp):
TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCGAT
Found at i:23496861 original size:6 final size:6
Alignment explanation
Indices: 23496852--23496876 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23496842 TAAAGATGAA
23496852 GAGAGG GAGAGG GAGAGG GAGAGG G
1 GAGAGG GAGAGG GAGAGG GAGAGG G
23496877 GGTTAGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:23498750 original size:18 final size:18
Alignment explanation
Indices: 23498727--23498761 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23498717 GGCTTAGTAC
23498727 CCAAAC-TAAAGCCCAAAA
1 CCAAACTTAAA-CCCAAAA
23498745 CCAAACTTAAACCCAAA
1 CCAAACTTAAACCCAAA
23498762 CCTACCCCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.54, C:0.34, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAACTTAAACCCAAAA
Found at i:23508204 original size:44 final size:43
Alignment explanation
Indices: 23508154--23508276 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
23508144 AAGGGTGAGA
*
23508154 AGTAAAATTTTAAGGGGAAAATAAAAAGTTTGGGGGGTTGATA-G
1 AGTAAAATTTT-AGGGGAAAGTAAAAAGTTTGGGGGGTTGA-AGG
*** *
23508198 AGTAAAATTTTAGAGGGAAAGTAAATTTTTTAGGGGGTTGAAGG
1 AGTAAAATTTTAG-GGGAAAGTAAAAAGTTTGGGGGGTTGAAGG
* *
23508242 AGTAAAATTTTGGGGGGAAAGTAAAGAGGTTTGGG
1 AGTAAAATTTT-AGGGGAAAGTAAA-AAGTTTGGG
23508277 AGTTTCGGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.05
44 56 0.86
45 6 0.09
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.28
Consensus pattern (43 bp):
AGTAAAATTTTAGGGGAAAGTAAAAAGTTTGGGGGGTTGAAGG
Found at i:23508266 original size:19 final size:19
Alignment explanation
Indices: 23508198--23508266 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
23508188 GGGTTGATAG
* *
23508198 AGTAAAATTTTAGAGGGAA
1 AGTAAAATTTTGGGGGGAA
*
23508217 AGTAAATTTTTTAGGGGGTTGAA
1 AGTAAA-ATTTT-GGGGG--GAA
23508240 GGAGTAAAATTTTGGGGGGAA
1 --AGTAAAATTTTGGGGGGAA
23508261 AGTAAA
1 AGTAAA
23508267 GAGGTTTGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
19 12 0.30
20 4 0.10
21 6 0.15
23 8 0.20
24 4 0.10
25 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (19 bp):
AGTAAAATTTTGGGGGGAA
Found at i:23509888 original size:20 final size:20
Alignment explanation
Indices: 23509863--23509904 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
23509853 TTTATTTTAG
23509863 TATATATTTATAATTGAAAA
1 TATATATTTATAATTGAAAA
*
23509883 TATATATTTATAGTTGAAAA
1 TATATATTTATAATTGAAAA
23509903 TA
1 TA
23509905 AGTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TATATATTTATAATTGAAAA
Found at i:23509939 original size:3 final size:3
Alignment explanation
Indices: 23509931--23509982 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
23509921 TGTTGCTAAA
* * *
23509931 TAT TAT TAT GAT TAT TAT TAT CAT TAT TAT TAC TACT T-T TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
23509977 TAT TAT
1 TAT TAT
23509983 GGTAATTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.85
4 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:23514222 original size:37 final size:37
Alignment explanation
Indices: 23514172--23514250 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
23514162 TTATTACGAA
* *
23514172 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
23514209 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
23514246 GTCTT
1 GTCTT
23514251 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Done.