Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 95 of 222
Found at i:29773758 original size:16 final size:16
Alignment explanation
Indices: 29773737--29773769 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29773727 TTCCTTCTCG
29773737 AGGAGGTAGATGCATA
1 AGGAGGTAGATGCATA
29773753 AGGAGGTAGATGCATA
1 AGGAGGTAGATGCATA
29773769 A
1 A
29773770 CTGCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.36, T:0.18
Consensus pattern (16 bp):
AGGAGGTAGATGCATA
Found at i:29782740 original size:11 final size:11
Alignment explanation
Indices: 29782726--29782752 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29782716 TGTATTATAT
29782726 AATAATAATAA
1 AATAATAATAA
29782737 AATAATAATAA
1 AATAATAATAA
29782748 AATAA
1 AATAA
29782753 AGTGGTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAATAA
Found at i:29793162 original size:50 final size:50
Alignment explanation
Indices: 29793071--29793261 Score: 184
Period size: 50 Copynumber: 3.7 Consensus size: 50
29793061 TCTTGTACTT
* * * *** **
29793071 CCAATGCCATATCCCAGATACGGTCTTACATAAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATAGGTG
* * * *
29793121 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATAGGTG
* * *
29793171 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--T--A-GGTG
*
29793227 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
29793262 TATCTTTACC
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 77 0.67
53 1 0.01
56 37 0.32
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATAGGTG
Found at i:29793230 original size:56 final size:50
Alignment explanation
Indices: 29793126--29793261 Score: 182
Period size: 56 Copynumber: 2.6 Consensus size: 50
29793116 AGGTGCCCAT
** *
29793126 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCCAAC
*
29793176 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TGATGCCAAC
29793232 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
29793262 TATCTTTACC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 34 0.45
53 4 0.05
56 38 0.50
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCCAAC
Found at i:29799032 original size:50 final size:50
Alignment explanation
Indices: 29798916--29799151 Score: 213
Period size: 50 Copynumber: 4.7 Consensus size: 50
29798906 GAATATAACA
* * * * ** * * * *
29798916 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAGG
* * * * **
29798965 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAGG
* * * ** * *
29799015 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAGG
* *
29799065 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATTTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAGG
* * *
29799115 TACCAACGACATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA
29799152 TATCTTTACC
Statistics
Matches: 152, Mismatches: 34, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 36 0.24
50 116 0.76
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:29799082 original size:100 final size:100
Alignment explanation
Indices: 29798965--29799145 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 100
29798955 TTTCTTGTAC
* * ** * * * *
29798965 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATATAGGTACCAACGACATGTC
29799030 CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
* * * *
29799065 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATTTCGGTACCAACGACATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATATAGGTACCAACGACATGTC
29799130 CCAGACATGGTCTTAC
66 CCAGACATGGTCTTAC
29799146 ATGGGATATC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATATAGGTACCAACGACATGTC
CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
Found at i:29799965 original size:35 final size:35
Alignment explanation
Indices: 29799926--29800006 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
29799916 GAGTCAGAAA
*
29799926 ACCATTTTCATGGTGTCACTCTATAGAGCCAGTAG
1 ACCATTTTCATGGTGTCACTCCATAGAGCCAGTAG
* * *
29799961 ACCATTTCCATGGTGTCGCTCCATAGAGCTAGTAG
1 ACCATTTTCATGGTGTCACTCCATAGAGCCAGTAG
29799996 ACCATTTTCAT
1 ACCATTTTCAT
29800007 AATGCCGCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (35 bp):
ACCATTTTCATGGTGTCACTCCATAGAGCCAGTAG
Found at i:29800023 original size:35 final size:35
Alignment explanation
Indices: 29799948--29800072 Score: 108
Period size: 35 Copynumber: 3.6 Consensus size: 35
29799938 GTGTCACTCT
* * ** *
29799948 ATAGAGCCAGTAGACCATTTCCATGGTGTCGCTCC
1 ATAGAGCTAGTAGACCATTTTCATAATGCCGCTCC
*
29799983 ATAGAGCTAGTAGACCATTTTCATAATGCCGCTTC
1 ATAGAGCTAGTAGACCATTTTCATAATGCCGCTCC
* * ** * * *
29800018 GTAGAG-TCAATAGACCATTTTTGTGATGTCGTTCC
1 ATAGAGCT-AGTAGACCATTTTCATAATGCCGCTCC
*
29800053 ATAGAGCTAGTAGACTATTT
1 ATAGAGCTAGTAGACCATTT
29800073 CCCAACCAAA
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
34 1 0.01
35 69 0.97
36 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (35 bp):
ATAGAGCTAGTAGACCATTTTCATAATGCCGCTCC
Found at i:29802366 original size:26 final size:26
Alignment explanation
Indices: 29802336--29802393 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
29802326 GTTAAAACTC
*
29802336 TTTTAAAAG-AAAACTCAAGAGAAATT
1 TTTTAAAAGAAAAACACAAGA-AAATT
29802362 TTTTAAAAGAAAAACACAAGAAAATT
1 TTTTAAAAGAAAAACACAAGAAAATT
*
29802388 TATTAA
1 TTTTAA
29802394 TTCAAAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (26 bp):
TTTTAAAAGAAAAACACAAGAAAATT
Found at i:29816329 original size:16 final size:16
Alignment explanation
Indices: 29816308--29816339 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29816298 GTTTTGTTGC
*
29816308 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
29816324 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
29816340 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:29816605 original size:51 final size:50
Alignment explanation
Indices: 29816529--29816713 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 50
29816519 CCGGTTCACA
* *
29816529 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-ACTATTCGGTACATG
* * * *
29816580 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTATTCGGTACATG
* *
29816631 TAGTAGCCTGCACATAGTACTACACATGCGACC-TA-TCATTCGGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACT-ATTC-GGTACATG
29816681 TAGTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
29816714 GTCACTTTCA
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 40 0.35
51 69 0.60
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACTATTCGGTACATG
Found at i:29816708 original size:101 final size:101
Alignment explanation
Indices: 29816528--29816711 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
29816518 ACCGGTTCAC
*
29816528 ATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACATGTAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCAT-ACTATTCGATACATGTAGTAGCCTGCAC
29816593 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
65 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
*
29816630 ATAGTAGCCTGCACATAGTACTACACATGCGACC-TA-TCATTCGGGTACATGTAGTAGCCTGCA
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCATACT-ATTC-GATACATGTAGTAGCCTGCA
29816693 CATAGTACTACACACGTGA
64 CATAGTACTACACACGTGA
29816712 CCGTCACTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.06
101 39 0.50
102 33 0.42
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (101 bp):
ATAGTAGCCTGCACATAGTACTACACATGCGACCATACTATTCGATACATGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACGT
Found at i:29820375 original size:12 final size:11
Alignment explanation
Indices: 29820347--29820380 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
29820337 ACATATTTGC
*
29820347 ATCATTAGCAT
1 ATCATTATCAT
29820358 ATCATTATCAT
1 ATCATTATCAT
29820369 AATCATTATCAT
1 -ATCATTATCAT
29820381 TTGGCATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (11 bp):
ATCATTATCAT
Found at i:29825042 original size:21 final size:21
Alignment explanation
Indices: 29824978--29825036 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
29824968 GTAAATATTA
29824978 AATTAAATTTAATATTAAGAT
1 AATTAAATTTAATATTAAGAT
* * *
29824999 AA-TCACTTTAATATTAATAT
1 AATTAAATTTAATATTAAGAT
*
29825019 AATTTAATTTAATATTAA
1 AATTAAATTTAATATTAA
29825037 ACTAATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
AATTAAATTTAATATTAAGAT
Found at i:29825484 original size:11 final size:11
Alignment explanation
Indices: 29825468--29825492 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29825458 AAATATCATA
29825468 TTAATTTTAAT
1 TTAATTTTAAT
29825479 TTAATTTTAAT
1 TTAATTTTAAT
29825490 TTA
1 TTA
29825493 TCAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:29828298 original size:6 final size:7
Alignment explanation
Indices: 29828264--29828295 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
29828254 TAATATATTT
29828264 AAAATAG
1 AAAATAG
29828271 AAAATAG
1 AAAATAG
29828278 AAAATAG
1 AAAATAG
29828285 AAAAT-G
1 AAAATAG
29828291 AAAAT
1 AAAAT
29828296 GAAGGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
AAAATAG
Found at i:29828687 original size:31 final size:31
Alignment explanation
Indices: 29828649--29828711 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
29828639 TCTTACCTGA
* * *
29828649 GTAATAGTCATCGGCGATCGAGGAAGTAGGT
1 GTAATAGTCACCGCCGATAGAGGAAGTAGGT
29828680 GTAATAGTCACCGCCGATAGAGGAAGTAGGT
1 GTAATAGTCACCGCCGATAGAGGAAGTAGGT
29828711 G
1 G
29828712 GGAGGTGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (31 bp):
GTAATAGTCACCGCCGATAGAGGAAGTAGGT
Found at i:29829593 original size:28 final size:27
Alignment explanation
Indices: 29829562--29829632 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
29829552 ATGGCACCAT
29829562 AAAGGCATTCCCTTTTAGAGATAGCCAC
1 AAAGGCATT-CCTTTTAGAGATAGCCAC
** *
29829590 AAAGGC-TTCCTTAGCCAGAGATTGCCAC
1 AAAGGCATTCCTT--TTAGAGATAGCCAC
29829618 AAAGGCA-TCCTTTTA
1 AAAGGCATTCCTTTTA
29829633 TTAAGTACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
26 5 0.14
27 2 0.06
28 28 0.80
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAGGCATTCCTTTTAGAGATAGCCAC
Found at i:29829744 original size:28 final size:29
Alignment explanation
Indices: 29829681--29829765 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 29
29829671 CCATAAAAAC
*
29829681 TTACCTTTTCAGAGTTTTGCCACAAAGGT
1 TTACCTTTTCAGAGTTTCGCCACAAAGGT
29829710 TGT-CCTTTTACAG-G-TTCGCCACAAAGGT
1 T-TACCTTTT-CAGAGTTTCGCCACAAAGGT
* **
29829738 TTACCTTTCCAGAGTTTTTCCACAAAGG
1 TTACCTTTTCAGAGTTTCGCCACAAAGG
29829766 ATATCCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
27 4 0.09
28 20 0.43
29 19 0.40
30 4 0.09
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (29 bp):
TTACCTTTTCAGAGTTTCGCCACAAAGGT
Found at i:29829773 original size:29 final size:28
Alignment explanation
Indices: 29829684--29829774 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
29829674 TAAAAACTTA
* *
29829684 CCTTTTCAGAGTTTTGCCACAAAGGTTGT
1 CCTTTACAGAGTTTTGCCACAAAGG-TAT
* *
29829713 CCTTTTACAG-G-TTCGCCACAAAGGTTT
1 CC-TTTACAGAGTTTTGCCACAAAGGTAT
* *
29829740 ACCTTTCCAGAGTTTTTCCACAAAGGATAT
1 -CCTTTACAGAGTTTTGCCACAAAGG-TAT
29829770 CCTTT
1 CCTTT
29829775 TACTGACGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 8 0.16
28 15 0.30
29 19 0.38
30 8 0.16
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (28 bp):
CCTTTACAGAGTTTTGCCACAAAGGTAT
Found at i:29832150 original size:47 final size:47
Alignment explanation
Indices: 29832072--29832522 Score: 724
Period size: 47 Copynumber: 9.6 Consensus size: 47
29832062 CCCTTCGGGA
* * * * * *
29832072 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29832118 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29832166 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
29832213 CACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29832260 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29832307 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29832356 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29832403 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29832450 CTCATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29832497 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
29832523 CACAATTATC
Statistics
Matches: 377, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 328 0.87
48 2 0.01
49 45 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29832500 original size:237 final size:235
Alignment explanation
Indices: 29832072--29832522 Score: 787
Period size: 237 Copynumber: 1.9 Consensus size: 235
29832062 CCCTTCGGGA
* *
29832072 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCTCTATCACATATATACAC
*
29832137 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
29832202 GGCCATTAGGCCACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
29832267 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29832307 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC-CTTATCACATATATA
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATTGGCCACTCGGCTC-TATCACATATATA
*
29832371 CACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* * *
29832436 ATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
128 ATCGGCCATTAGGCCACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29832501 TCACATATATACACTTTCACAT
193 TCACATATATACACTTTCACAT
29832523 CACAATTATC
Statistics
Matches: 204, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
235 10 0.05
236 2 0.01
237 192 0.94
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (235 bp):
CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCTCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCACATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29838264 original size:21 final size:20
Alignment explanation
Indices: 29838240--29838309 Score: 113
Period size: 21 Copynumber: 3.4 Consensus size: 20
29838230 TGTCTCCCCC
29838240 ACACGCCAGTGTAGCCATTCT
1 ACACGCCA-TGTAGCCATTCT
29838261 ACACGCCCATGTAGCCATTCT
1 ACACG-CCATGTAGCCATTCT
29838282 ACACGCCAATGTAGCCATTCT
1 ACACGCC-ATGTAGCCATTCT
29838303 ACACGCC
1 ACACGCC
29838310 CATTACCCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.04
21 42 0.89
22 3 0.06
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (20 bp):
ACACGCCATGTAGCCATTCT
Found at i:29845804 original size:37 final size:37
Alignment explanation
Indices: 29845758--29845828 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
29845748 AAAAATAATA
*
29845758 TTATTTTAATAGT-TTAATATTAAGTTTAAT-TTAACAC
1 TTATCTTAATAGTATT-ATATTAA-TTTAATATTAACAC
*
29845795 TTATCTTAATAGTATTTTATTAATTTAATATTAA
1 TTATCTTAATAGTATTATATTAATTTAATATTAA
29845829 AGTGATTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 22 0.73
38 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (37 bp):
TTATCTTAATAGTATTATATTAATTTAATATTAACAC
Found at i:29845918 original size:16 final size:16
Alignment explanation
Indices: 29845899--29845945 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
29845889 TTTTAATAAG
29845899 ATCTAATATTAAATTA
1 ATCTAATATTAAATTA
29845915 ATCTAATATTTAAA-T-
1 ATCTAATA-TTAAATTA
29845930 AT-T-ATATTAAATTA
1 ATCTAATATTAAATTA
29845944 AT
1 AT
29845946 ATTAAAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 5 0.18
13 4 0.14
14 3 0.11
15 2 0.07
16 9 0.32
17 5 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
ATCTAATATTAAATTA
Found at i:29845938 original size:24 final size:24
Alignment explanation
Indices: 29845903--29845948 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
29845893 AATAAGATCT
29845903 AATATTAAATT-AATCTAATATTTA
1 AATATTAAATTAAAT-TAATATTTA
*
29845927 AATATTATATTAAATTAATATT
1 AATATTAAATTAAATTAATATT
29845949 AAAGTGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATTAAATTAAATTAATATTTA
Found at i:29846298 original size:16 final size:16
Alignment explanation
Indices: 29846273--29846308 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29846263 TGGTTCGCTA
*
29846273 TAATGAAATAGAGGTG
1 TAATGAAATAGAGGCG
*
29846289 TAATGGAATAGAGGCG
1 TAATGAAATAGAGGCG
29846305 TAAT
1 TAAT
29846309 AGTAATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.31, T:0.25
Consensus pattern (16 bp):
TAATGAAATAGAGGCG
Found at i:29846353 original size:44 final size:44
Alignment explanation
Indices: 29846290--29846381 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
29846280 ATAGAGGTGT
*
29846290 AATGGAATAGAGGCGTAATAGTAATCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGACGTAATAGTAATC-ATGTGTTTGGTTGAATGG
* *
29846334 AATGGAATAGA-ACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGAC-GTAATAGTAATCATGTGTTTGGTTGAATGG
29846378 AATG
1 AATG
29846382 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGACGTAATAGTAATCATGTGTTTGGTTGAATGG
Found at i:29846672 original size:102 final size:102
Alignment explanation
Indices: 29846557--29846997 Score: 580
Period size: 102 Copynumber: 4.2 Consensus size: 102
29846547 TAATAAAAAT
29846557 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
29846622 AATACTATAAAATATAATTTAGAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
* * * *
29846659 ATATAATTTAATAAAAATATATAAT-TTATAAAATTCTTAATATTAAATATT-CTTATATGAATT
1 ATATAATTTAATAAAATTCT-TAATATTA-AATATTCTT-ATA-TGAAT-TTAC-TA-A--AA--
* * * *
29846722 TACTAAAATCATAAGATATAATAATATATAATATAATTTAAAATAATTATTATTAA
55 T-C-ATAAT-AT-ATA-ATACT-ATA-A-AATATAATTTAAAATAATAATTATTAA
29846778 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
29846843 AATACTATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
*
29846880 ATATAATTTAATAATATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
29846945 AATACTATAAAATATAATCTAAAATAATAATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
29846982 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
29846998 ATATATAATT
Statistics
Matches: 299, Mismatches: 19, Indels: 42
0.83 0.05 0.12
Matches are distributed among these distances:
102 162 0.54
103 13 0.04
104 6 0.02
105 9 0.03
106 6 0.02
107 3 0.01
108 4 0.01
109 3 0.01
110 1 0.00
111 1 0.00
112 3 0.01
113 4 0.01
114 3 0.01
115 6 0.02
116 9 0.03
117 6 0.02
118 13 0.04
119 47 0.16
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATAATTATTAA
Found at i:29846741 original size:119 final size:120
Alignment explanation
Indices: 29846519--29846793 Score: 498
Period size: 119 Copynumber: 2.3 Consensus size: 120
29846509 TTAATCCTAT
*
29846519 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
29846584 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAA
*
29846639 TTTAGAATAATTATTATTAAATATAATTTAATAAAAATATATAATTT-ATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
29846703 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATATAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAA
29846758 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
29846794 TTCTTAATAT
Statistics
Matches: 149, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
119 104 0.70
120 45 0.30
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAA
Found at i:29846781 original size:26 final size:26
Alignment explanation
Indices: 29846751--29846895 Score: 85
Period size: 26 Copynumber: 5.6 Consensus size: 26
29846741 AATAATATAT
29846751 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
29846777 AATATAATTTAATAA-AATTCTTAATATTA
1 AATATAATTTAA-AATAA---TTATTATTA
* *
29846806 AATAT--TCTT-ATATGAA-T-TTACTAA
1 AATATAAT-TTAAAAT-AATTATTA-TTA
* * *
29846830 AATCATAA--T-ATATAA-TACTATAA
1 AAT-ATAATTTAAAATAATTATTATTA
29846853 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
29846879 AATATAATTTAATAATA
1 AATATAATTTAA-AATA
29846896 TTCTTAATAT
Statistics
Matches: 94, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
22 4 0.04
23 11 0.12
24 14 0.15
25 7 0.07
26 33 0.35
27 8 0.09
28 4 0.04
29 13 0.14
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:29846907 original size:29 final size:26
Alignment explanation
Indices: 29846739--29846912 Score: 84
Period size: 26 Copynumber: 6.7 Consensus size: 26
29846729 ATCATAAGAT
29846739 ATAA-TAATA-TATAATATAATTTAAA
1 ATAATTAATATTA-AATATAATTTAAA
*
29846764 ATAATTATTATTAAATATAATTTAATA
1 ATAATTAATATTAAATATAATTTAA-A
*
29846791 A-AATTCTTAATATTAAATAT--TCTT-AT
1 ATAA---TTAATATTAAATATAAT-TTAAA
* *
29846817 ATGAATT--TACTAAAATCATAA--T-AT
1 AT-AATTAATA-TTAAAT-ATAATTTAAA
* *
29846841 ATAA-TACTATAAAATATAATTTAAA
1 ATAATTAATATTAAATATAATTTAAA
*
29846866 ATAATTATTATTAAATATAATTTAATA
1 ATAATTAATATTAAATATAATTTAA-A
*
29846893 ATATTCTTAATATTAAATAT
1 ATA--ATTAATATTAAATAT
29846913 TCTTATATGA
Statistics
Matches: 118, Mismatches: 9, Indels: 40
0.71 0.05 0.24
Matches are distributed among these distances:
22 5 0.04
23 10 0.08
24 13 0.11
25 13 0.11
26 37 0.31
27 10 0.08
28 4 0.03
29 26 0.22
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
ATAATTAATATTAAATATAATTTAAA
Found at i:29847027 original size:119 final size:120
Alignment explanation
Indices: 29846880--29847301 Score: 742
Period size: 119 Copynumber: 3.5 Consensus size: 120
29846870 TTATTATTAA
*
29846880 ATATAATTTAATAATATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
29846945 AATACTATAAAATATAATCTAAAATAATAATTATTAAATATAATTTAATAAAAAT
66 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
29847000 ATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
29847064 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAA-AAAATAT
66 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAA-AT
*
29847119 ATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATTATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
29847183 AATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
* *
29847238 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATGATATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
29847302 AAAGCACTTT
Statistics
Matches: 290, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
118 4 0.01
119 222 0.77
120 64 0.22
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:29847086 original size:12 final size:12
Alignment explanation
Indices: 29847048--29847124 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
29847038 ATGAATTTAC
29847048 TAAAATCATAATA
1 TAAAAT-ATAATA
*
29847061 T-ATA-ATAATA
1 TAAAATATAATA
*
29847071 TAAAATATAATC
1 TAAAATATAATA
*
29847083 TAAAATAATTATTA
1 TAAAAT-A-TAATA
* *
29847097 TTAAATATAATT
1 TAAAATATAATA
*
29847109 TAAAAAATATATA
1 TAAAATATA-ATA
29847122 TAA
1 TAA
29847125 TTTATAAAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 23 0.48
13 8 0.17
14 8 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:29847201 original size:12 final size:12
Alignment explanation
Indices: 29847184--29847230 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
29847174 ATAATATATA
29847184 ATAATTTAAAAT
1 ATAATTTAAAAT
29847196 ATAATTTAAAAT
1 ATAATTTAAAAT
* *
29847208 AATTATTATTAAAT
1 -ATAATT-TAAAAT
29847222 ATAATTTAA
1 ATAATTTAA
29847231 TAAAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 14 0.48
13 10 0.34
14 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAATTTAAAAT
Found at i:29855447 original size:20 final size:20
Alignment explanation
Indices: 29855402--29855447 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
29855392 GCTCGTTTCT
*
29855402 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* *
29855422 AACTCACTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
29855442 AGCTCA
1 AGCTCA
29855448 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:29858134 original size:48 final size:47
Alignment explanation
Indices: 29858055--29858160 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
29858045 GAGTGTCATG
*
29858055 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
29858103 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
29858151 GAAAAAGAAA
1 GAAAAAGAAA
29858161 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:29859872 original size:20 final size:20
Alignment explanation
Indices: 29859826--29859872 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
29859816 AGCTCGTTTC
*
29859826 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
29859846 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
29859866 CAGCTCA
1 CAGCTCA
29859873 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:29862235 original size:20 final size:20
Alignment explanation
Indices: 29862189--29862235 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
29862179 AGCTCGTTTC
*
29862189 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
29862209 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
29862229 CAGCTCA
1 CAGCTCA
29862236 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:29864023 original size:87 final size:88
Alignment explanation
Indices: 29863863--29864031 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
29863853 GTTTTTGTTT
* * * * *
29863863 TTTTTTCCACTCATTTGGGTACTTAAACTTTTAAAATATATCAAAAAAATCCTCAAACCTTTTCA
1 TTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATACATCAAAAAAATCCTCAAACATTTTCA
29863928 AAAAAAGCAATTAAGCCTCTATA
66 AAAAAAGCAATTAAGCCTCTATA
* * *
29863951 TTTTTTCCACTCAATTGGATACTTAAACTTTCAAACTGCATCAAAAAGA-CCTCAAACATTTTCA
1 TTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATACATCAAAAAAATCCTCAAACATTTTCA
*
29864015 AATAAAGCAATTAAGCC
66 AAAAAAGCAATTAAGCC
29864032 CTTGCTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 30 0.42
88 42 0.58
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (88 bp):
TTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATACATCAAAAAAATCCTCAAACATTTTCA
AAAAAAGCAATTAAGCCTCTATA
Found at i:29864101 original size:21 final size:19
Alignment explanation
Indices: 29864059--29864112 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
29864049 TTAGAAAAAA
29864059 ATATAAAAATTGTAAATAT
1 ATATAAAAATTGTAAATAT
*
29864078 ATATATAAATTGTAAACT-T
1 ATATAAAAATTGTAAA-TAT
* *
29864097 TTATAAAAATCGTAAA
1 ATATAAAAATTGTAAA
29864113 AAAATTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 29 0.97
20 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (19 bp):
ATATAAAAATTGTAAATAT
Found at i:29864194 original size:57 final size:57
Alignment explanation
Indices: 29864036--29864197 Score: 159
Period size: 57 Copynumber: 2.8 Consensus size: 57
29864026 TAAGCCCTTG
* * * * * * *
29864036 CTTTTATTAAAAATTAGAAAAAAA-TATAAAAATTGTAAATATATATATAAATTGTAAA
1 CTTTTA-TAAAAATCATAAAAAAATTATAAAAA-TGTAAAGAAATATAAAAAATATAAA
* * *
29864094 CTTTTATAAAAATCGTAAAAAAATTAT-AAAATATATAGAAATATAAAAAATATAAA
1 CTTTTATAAAAATCATAAAAAAATTATAAAAATGTAAAGAAATATAAAAAATATAAA
* * *
29864150 TTTTTAT-AAAGTCATAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 CTTTTATAAAAATCATAAAAAAATTATA-AAAATGTAAAGAAATATAAA
29864198 TTTTTAAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
55 16 0.19
56 24 0.28
57 36 0.42
58 9 0.11
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (57 bp):
CTTTTATAAAAATCATAAAAAAATTATAAAAATGTAAAGAAATATAAAAAATATAAA
Found at i:29864433 original size:17 final size:17
Alignment explanation
Indices: 29864411--29864444 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29864401 TTTTTTATAA
29864411 AAAAATTTAT-AATTTTT
1 AAAAATTT-TGAATTTTT
29864428 AAAAATTTTGAATTTTT
1 AAAAATTTTGAATTTTT
29864445 TTATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AAAAATTTTGAATTTTT
Found at i:29865410 original size:9 final size:9
Alignment explanation
Indices: 29865386--29865423 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
29865376 TTGGTTTTTG
*
29865386 AATTCGATT
1 AATTCGAAT
*
29865395 AACTCGAAT
1 AATTCGAAT
29865404 AATTCGAAT
1 AATTCGAAT
29865413 AATTCGAAT
1 AATTCGAAT
29865422 AA
1 AA
29865424 ACCGAATACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:29877683 original size:13 final size:13
Alignment explanation
Indices: 29877653--29877695 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
29877643 TTTTGTACTC
*
29877653 TTTTAAAATTTAA
1 TTTTAAATTTTAA
* *
29877666 ATTTAAATTTTAG
1 TTTTAAATTTTAA
*
29877679 TTTTATATTTTAA
1 TTTTAAATTTTAA
29877692 TTTT
1 TTTT
29877696 TGAGACATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:29878904 original size:13 final size:12
Alignment explanation
Indices: 29878880--29878945 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 12
29878870 TTGTGTAAAG
*
29878880 TATGTTAAATAT
1 TATGTAAAATAT
29878892 TAGTGTAAAATAT
1 TA-TGTAAAATAT
*
29878905 ACTATATAGAAATTAT
1 --TATGTA-AAA-TAT
*
29878921 TATGTTAAATAT
1 TATGTAAAATAT
29878933 TAGTGTAAAATAT
1 TA-TGTAAAATAT
29878946 ACTATATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
12 7 0.16
13 21 0.49
14 7 0.16
15 5 0.12
16 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (12 bp):
TATGTAAAATAT
Found at i:29878953 original size:41 final size:41
Alignment explanation
Indices: 29878880--29878959 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
29878870 TTGTGTAAAG
*
29878880 TATGTTAAATATTAGTGTAAAATATACTATATAGAAATTAT
1 TATGTTAAATATTAGTGTAAAATATACTATATAAAAATTAT
29878921 TATGTTAAATATTAGTGTAAAATATACTATATAAAAATT
1 TATGTTAAATATTAGTGTAAAATATACTATATAAAAATT
29878960 TCAAGAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (41 bp):
TATGTTAAATATTAGTGTAAAATATACTATATAAAAATTAT
Found at i:29880165 original size:7 final size:7
Alignment explanation
Indices: 29880149--29880182 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
29880139 ACTCAAAGCC
29880149 AAAAAA-
1 AAAAAAG
29880155 AAAAAAG
1 AAAAAAG
29880162 AAAAAAAG
1 -AAAAAAG
29880170 AAAAAAG
1 AAAAAAG
29880177 AAAAAA
1 AAAAAA
29880183 AAAGAGTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:29880165 original size:8 final size:8
Alignment explanation
Indices: 29880149--29880183 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
29880139 ACTCAAAGCC
29880149 AAAAA-AA
1 AAAAAGAA
29880156 AAAAAGAA
1 AAAAAGAA
29880164 AAAAAG-A
1 AAAAAGAA
29880171 AAAAAGAA
1 AAAAAGAA
29880179 AAAAA
1 AAAAA
29880184 AAGAGTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:29880167 original size:15 final size:15
Alignment explanation
Indices: 29880149--29880185 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
29880139 ACTCAAAGCC
29880149 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
29880164 AAAAAGAAAAAAGAA
1 AAAAAAAAAAAAGAA
29880179 AAAAAAA
1 AAAAAAA
29880186 GAGTAGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:29884182 original size:20 final size:20
Alignment explanation
Indices: 29884155--29884206 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
29884145 TATGAACCAC
29884155 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
* *
29884175 TTCATTTACTTGCTTTCCAT
1 TCCATTTACTTACTTTCCAT
29884195 TCCATTTACTTA
1 TCCATTTACTTA
29884207 GCATAAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.27, G:0.02, T:0.52
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:29901411 original size:79 final size:79
Alignment explanation
Indices: 29901300--29901522 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
29901290 GCTCCTCGTT
* * *
29901300 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
29901364 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
29901380 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29901443 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
29901458 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
29901520 GGA
63 GGA
29901523 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 57 0.45
80 23 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:29901417 original size:39 final size:40
Alignment explanation
Indices: 29901300--29901522 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
29901290 GCTCCTCGTT
* *
29901300 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
29901340 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29901380 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29901419 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
29901458 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
29901499 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29901523 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:29909377 original size:79 final size:79
Alignment explanation
Indices: 29909277--29909499 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 79
29909267 GCTCCTCGTT
* * *
29909277 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCTG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
29909342 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
29909357 CAAATGCCTTCGGGCTTAGCCC-GAAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
*
29909419 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * * *
29909435 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCG
29909498 GA
64 GA
29909500 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 47 0.38
79 53 0.43
80 22 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:29909499 original size:39 final size:40
Alignment explanation
Indices: 29909277--29909499 Score: 241
Period size: 39 Copynumber: 5.7 Consensus size: 40
29909267 GCTCCTCGTT
* *
29909277 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ATTCGCA
* * *
29909317 CAAATGCCTTCGGGACTTAACCCTGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ATTCGCA
*
29909357 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAT-TCGCA
29909396 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAT-TCGCA
* *
29909435 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGT-A-TTCGCA
29909476 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29909500 CATCATTCAA
Statistics
Matches: 162, Mismatches: 11, Indels: 21
0.84 0.06 0.11
Matches are distributed among these distances:
38 5 0.03
39 80 0.49
40 67 0.41
41 9 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTATTCGCA
Found at i:29913579 original size:93 final size:91
Alignment explanation
Indices: 29913446--29913732 Score: 405
Period size: 93 Copynumber: 3.1 Consensus size: 91
29913436 AACATTATAT
* * * *
29913446 AATTGTTAAACTAAG-TTTTTTTGATAGTATGTTTAGATATAACAAATTAACGTATTTTTGAATA
1 AATTGTTAAACTAAGCTTTATTTGATAATATGTTTTGATATAACAAATTAA-ATATTTTTG-ATA
*
29913510 AAAGTTAAAGTTGAACAAAATTTGACAA
64 AAAGTTAAAGTTGAACAAAATTAGACAA
* * *
29913538 AATTATTAAACTAAGCTTCATTTGATAATATGTTTTGATATAACAAATTATAATGTTTTTGCATA
1 AATTGTTAAACTAAGCTTTATTTGATAATATGTTTTGATATAACAAATTA-AATATTTTTG-ATA
* * *
29913603 AAAGTTAAAGTTGAAAAAAATTGGGCAA
64 AAAGTTAAAGTTGAACAAAATTAGACAA
*
29913631 AATTGTTAAACTAAGCTTTATTTGATAATATGTTTTGATATAACAAATTAAAATATTTTTGAGAA
1 AATTGTTAAACTAAGCTTTATTTGATAATATGTTTTGATATAACAAATT-AAATATTTTTGATAA
29913696 AAGTTAAAGTTGAACAAAATTAGACAA
65 AAGTTAAAGTTGAACAAAATTAGACAA
*
29913723 AATTGATAAA
1 AATTGTTAAA
29913733 ATGAAGTAAA
Statistics
Matches: 173, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
92 50 0.29
93 121 0.70
94 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (91 bp):
AATTGTTAAACTAAGCTTTATTTGATAATATGTTTTGATATAACAAATTAAATATTTTTGATAAA
AGTTAAAGTTGAACAAAATTAGACAA
Found at i:29913900 original size:21 final size:21
Alignment explanation
Indices: 29913874--29913914 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
29913864 CAATGATTTA
29913874 CAAAATGTGTCGATACCTTTC
1 CAAAATGTGTCGATACCTTTC
29913895 CAAAATGTGTCGATACCTTT
1 CAAAATGTGTCGATACCTTT
29913915 TATCAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (21 bp):
CAAAATGTGTCGATACCTTTC
Found at i:29915334 original size:6 final size:6
Alignment explanation
Indices: 29915323--29915544 Score: 444
Period size: 6 Copynumber: 37.0 Consensus size: 6
29915313 CTTACCATGC
29915323 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
29915371 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
29915419 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
29915467 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
29915515 CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA
29915545 ATCCATACAA
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 216 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:29922394 original size:32 final size:32
Alignment explanation
Indices: 29922349--29922414 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
29922339 AATATGCATA
*
29922349 AATTTAATGCCTATCTACGGTGTAATGTATAG
1 AATTTAATACCTATCTACGGTGTAATGTATAG
29922381 AATTTAATACCTATCTACGGTGTAATGTATAG
1 AATTTAATACCTATCTACGGTGTAATGTATAG
29922413 AA
1 AA
29922415 CTTAGTAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
AATTTAATACCTATCTACGGTGTAATGTATAG
Found at i:29947605 original size:4 final size:4
Alignment explanation
Indices: 29947596--29947630 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
29947586 TAATAGGTAA
* *
29947596 AAAT AAAT AAAT AAAT AAAT AAAC AAAC AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
29947631 AGAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:29947942 original size:9 final size:8
Alignment explanation
Indices: 29947925--29947953 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
29947915 TGAAAATAGT
29947925 AATAAAAA
1 AATAAAAA
29947933 AATAAAAA
1 AATAAAAA
29947941 AAT-AAAA
1 AATAAAAA
29947948 AATAAA
1 AATAAA
29947954 TAGAGTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:29949794 original size:51 final size:51
Alignment explanation
Indices: 29949725--29951296 Score: 1158
Period size: 51 Copynumber: 31.9 Consensus size: 51
29949715 CCAAATTTGT
29949725 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * * *
29949776 AGCTTTAATCTATTCCACTACAATGCCAGGAAAAAAAGATTCACTACCTAC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
*
29949827 AGCTTTAATCTAG-TCCACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCT-GTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* ** * *** *
29949878 AGCCTTAA--T-TT--ACTGCAACTTCA-GGAAGATAAGATCCGCCATAAATTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATTCG-C-T-GCCTTC
* * * * * *
29949927 AGCTTTAATTTGTTCCGCTGCAATGCCAGAGAAATAAGATTTGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* ** *
29949978 AGCTTTAATCTGTTCCACTGCAATGCCAGAAAAATAAGATTCGCTGTCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *** ** *
29950029 AG------TCTGATCCACTGCAACTTTAGGGGGATAAG----GCTG--GT-
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * ** **
29950067 GGCTTCAATTTGCTCCATTGCAACTTCA-GGAAGATAAGATTCGCCAT-AATTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATTCG-C-TGCCTTC
* * * * *
29950119 GTAGCTTTGATCTGTTCCATTGCAATGCTAGGGAGAA-AAGATTCGTTGCCTTC
1 --AGCTTTAATCTGTTCCACTGCAACGCCAGGGA-AATAAGATTCGCTGCCTTC
* *
29950172 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
29950223 AGCTTTAATCTGTTCCACTGCAACCCCAGGGAAAAAAGATTTGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *
29950274 AGCTTTAATCTGGTCCACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* ** * *
29950325 AGCTTTAATTTGTTCCACTGCAACGTTAGGGAAATAAGATTCACTGCCTCC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * *
29950376 AGCCTTAATC---T--ATTGCAATGCCAGGGAAAAAAGATTCACTACCCTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
29950422 AGCTTTAATCTATTCCACTGCAATGCTTA-GGAAA-AAGATTCACCGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGC-CAGGGAAATAAGATTCGCTGCCTTC
* * * *
29950472 AGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATAAGATTCGCTGCTTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
29950523 AGCTTTAATC---T--ACTTCAACACCAGGGAAATAAGATTCGTTGCTTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
29950569 AGCTTTAATCTGTTCCACTGTAACGCCAAGCAAATAAGATTCGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *** *
29950620 ATCTTTAATC---T--ATTGTAACGCCAGGGAAATAAGATTTATTGCTTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
29950666 AGCCTTAA--T-TT--ACTACAACGCCAGGGAAA-AGAGATTCGCTGCCCTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATA-AGATTCGCTGCCTTC
* * * * * *
29950712 AACTTTAATCTATTCCACTGCATCGCCTGGGAAAAAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
29950763 AGCTTTAATC---T--ACTACAACGCTAGGGAAATAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *** *
29950809 AGCTTTAATCTGTTCCATTGCAACGCCAACAAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* ** *
29950860 AGCTTTAA--T-TT--ACTGCAACGCTAGGGAAATAAGATTCATTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * *
29950906 TGCTTTAATCTGTTCTATTACAATGCCAAGGAAATAAGATTCGCTGCCTTG
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
29950957 AGCTTTAATC---T--ACTGGAATGCCAGGGAAAAAAGATTCACTACCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * ** * * *
29951003 AACCTTAATCTGTTCCACTGCATTGCCAAGGAAAAAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * ** * *
29951054 AGCTTTAATCTATTCCACTACATTGCCAAGGGAAA-AAGATTTGCTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCC-AGGGAAATAAGATTCGCTGCCTTC
* *
29951105 AGCTTTAATC---T--ACTTCAATGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * *
29951151 AACTTTAATTTATTCCATTGCAATGCTAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *
29951202 AGCTTTAATCTGTTCCACTGCAATGCCTGGGAAATAAGATTCGCTGTCC-TC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTG-CCTTC
* *
29951253 AGCTTTAATCTGTTCCACTACAACGCCCA-GGAAAAAAGATTCGC
1 AGCTTTAATCTGTTCCACTGCAACG-CCAGGGAAATAAGATTCGC
29951297 CATAATAACT
Statistics
Matches: 1210, Mismatches: 231, Indels: 160
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
41 4 0.00
43 2 0.00
44 21 0.02
45 33 0.03
46 299 0.25
47 1 0.00
48 13 0.01
49 23 0.02
50 46 0.04
51 696 0.58
52 16 0.01
53 3 0.00
54 43 0.04
55 7 0.01
56 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
Found at i:29950169 original size:194 final size:194
Alignment explanation
Indices: 29949447--29950224 Score: 796
Period size: 194 Copynumber: 4.0 Consensus size: 194
29949437 TTTAATCCTC
* * * *
29949447 TCCACTACAACTTCAGGGAGAT-AGGATTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAG
1 TCCACTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAG
* * * * * *
29949511 ATAAGATTCGCCATAAATTGTATCTTTAATTTCTTCCGCTGCAACGCTAGGGAAATAAGATTCGC
65 ATAAGATCCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
* * * * * * * * *
29949576 TGCCTTCAGCTTTAATCTGTTTCACTGCAACACTAGAGAAATAAGATTCGTTATCTTTAGTCTGC
130 TGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGAAAAATAAGATTCGCTGTCTTCAGTCTGA
* * * *
29949641 TCCAGTGTAACTTCAAGGAGATAAGGCTGGTAGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
*
29949706 TAAGATCCGCCA-AATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
66 TAAGATCCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
* * * * *
29949770 GCCTTCAGCTTTAATCTATTCCACTACAATGCCAGGAAAAA-AAGATTCACTACCTACAGCTTTA
131 GCCTTCAGCTTTAATCTATTCCACTGCAACGCCA-GAAAAATAAGATTCGCT--GT----CTTCA
*
29949834 ATCT-A
189 GTCTGA
* * ** * * ** * **
29949839 GTCCACTGCAAC-GCTAGGGAAATAAGATTCGCTGCCTTCAGCCTTAATTTACTGCAACTTCAGG
1 -TCCACTGCAACTTC-AGGGAGATAAGGCT-GGTGGCTTCAATC-TACTCCACTGCAACTTCAGG
* * * * *
29949903 AAGATAAGATCCGCCATAAATTTTAGCTTTAATTTGTTCCGCTGCAATGCCAGAGAAATAAGATT
62 AAGATAAGATCCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * * *
29949968 TGTTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAGAAAAATAAGATTCGCTGTCTTCAGTC
127 CGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGAAAAATAAGATTCGCTGTCTTCAGTC
29950033 TGA
192 TGA
* * * * *
29950036 TCCACTGCAACTTTAGGGGGATAAGGCTGGTGGCTTCAATTTGCTCCATTGCAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
* * * * *
29950101 TAAGATTCGCCAT-AATTCGTAGCTTTGATCTGTTCCATTGCAATGCTAGGGAGAA-AAGATTCG
66 TAAGATCCGCCATAAATT-GTAGCTTTAATCTGTTCCACTGCAACGCCAGGGA-AATAAGATTCG
* ** * *
29950164 TTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGATTCGCTGCCTTCAG
129 CTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGAAAAATAAGATTCGCTGTCTTCAG
29950225 CTTTAATCTG
Statistics
Matches: 479, Mismatches: 87, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
193 86 0.18
194 189 0.39
195 14 0.03
196 28 0.06
197 1 0.00
198 1 0.00
199 27 0.06
200 9 0.02
201 39 0.08
202 85 0.18
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (194 bp):
TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
TAAGATCCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
GCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGAAAAATAAGATTCGCTGTCTTCAGTCTGA
Found at i:29950604 original size:97 final size:97
Alignment explanation
Indices: 29950148--29951296 Score: 674
Period size: 97 Copynumber: 11.7 Consensus size: 97
29950138 TTGCAATGCT
* * *
29950148 AGGGAGAA-AAGATTCGTTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGAT
1 AGGGA-AATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
* *
29950212 TCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACCCC
65 TCGCTGCCTTCAGCTTTAATC---T--ACTTCAACGCC
* ** * *
29950250 AGGGAAAAAAGATTTGTTGCCTTCAGCTTTAATCTGGTCCACTGCAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * **
29950315 CGCTGCCTTCAGCTTTAATTTGTTCCACTGCAACGTT
66 CGCTGCCTTCAGCTTTAA-----TCTACTTCAACGCC
* * * * * *
29950352 AGGGAAATAAGATTCACTGCCTCCAGCCTTAATC---T--ATTGCAATGCCAGGGAAAAAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * * * *
29950412 CACTACCCTCAGCTTTAATCTA-TTCCACTGCA
66 CGCTGCCTTCAGCTTTAATCTACTTCAAC-GCC
** * * *
29950444 ATGCTTAGGAAA-AAGATTCACCGCCTTCAGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATA
1 A-G----GGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATA
* *
29950508 AGATTCGCTGCTTTCAGCTTTAATCTACTTCAACACC
61 AGATTCGCTGCCTTCAGCTTTAATCTACTTCAACGCC
* * * * *
29950545 AGGGAAATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGCAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * *
29950610 CGTTGCCTTCATCTTTAATCTA-TTGTAACGCC
66 CGCTGCCTTCAGCTTTAATCTACTT-CAACGCC
* * * *
29950642 AGGGAAATAAGATTTATTGCTTTCAGCCTTAA--T-TT--ACTACAACGCCAGGGAAA-AGAGAT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATA-AGAT
* *
29950701 TCGCTGCCCTCAACTTTAATCTA-TTCCACTGCATCGCC
65 TCGCTGCCTTCAGCTTTAATCTACTT-CA----A-CGCC
* * * * *
29950739 TGGGAAAAAAGATTCACTGCCTTCAGCTTTAATC---T--ACTACAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* *
29950799 TGCTGCCTTCAGCTTTAATCTGTTCCATTGCAACGCC
66 CGCTGCCTTCAGCTTTAATC---TAC-TT-CAACGCC
*** * *
29950836 AACAAAATAAGATTCACTGCCTTCAGCTTTAA--T-TT--ACTGCAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
** ** * *
29950896 CATTGCCTTTTGCTTTAATCTGTTCTATTACAATGCC
66 CGCTGCCTTCAGCTTTAATC--TAC--TT-CAACGCC
* ** * * * *
29950933 AAGGAAATAAGATTCGCTGCCTTGAGCTTTAATC---T--ACTGGAATGCCAGGGAAAAAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * * * * **
29950993 CACTACCTTCAACCTTAATCTGTTCCACTGCATTGCC
66 CGCTGCCTTCAGCTTTAATC---T--ACTTCAACGCC
* * *** * * **
29951030 AAGGAAAAAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTACATTGCCAAGGGAAA-AAGAT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCC-AGGGAAATAAGAT
* * *
29951094 TTGCTGCCTTTAGCTTTAATCTACTTCAATGCC
65 TCGCTGCCTTCAGCTTTAATCTACTTCAACGCC
** * * * * * * *
29951127 AGGGAAATAAGATTCGCTGCCTTCAACTTTAATTTATTCCATTGCAATGCTAAGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* *
29951192 CGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCC
66 CGCTGCCTTCAGCTTTAATC---T--ACTTCAACGCC
* ** * *
29951229 TGGGAAATAAGATTCGCTGTCC-TCAGCTTTAATCTGTTCCACTACAACGCCCA-GGAAAAAAGA
1 AGGGAAATAAGATTCATTG-CCTTCAGCTTTAATCTGTTCCACTGCAACG-CCAGGGAAATAAGA
29951292 TTCGC
64 TTCGC
29951297 CATAATAACT
Statistics
Matches: 842, Mismatches: 149, Indels: 112
0.76 0.14 0.10
Matches are distributed among these distances:
91 5 0.01
92 46 0.05
93 1 0.00
94 2 0.00
95 1 0.00
96 39 0.05
97 469 0.56
98 4 0.00
99 3 0.00
100 5 0.01
101 43 0.05
102 211 0.25
103 11 0.01
107 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (97 bp):
AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
CGCTGCCTTCAGCTTTAATCTACTTCAACGCC
Found at i:29950952 original size:148 final size:147
Alignment explanation
Indices: 29949725--29951296 Score: 939
Period size: 148 Copynumber: 10.6 Consensus size: 147
29949715 CCAAATTTGT
* *
29949725 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATT
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T
* * * * * * *
29949790 CCACTACAATGCCAGGAAAAAAAGATTCACTACCTACAGCTTTAATCTAGTCCACTGCAACGCTA
63 -CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTA-TTCACTGCAACGCTA
29949855 GGGAAATAAGATTCGCTGCCTTC
125 GGGAAATAAGATTCGCTGCCTTC
* * * * *** *
29949878 AGCCTTAA--T-TT--ACTGCAACT-TCA-GGAAGATAAGATCCGCCATAAATTTTAGCTTTAAT
1 AGCTTTAATCTGTTCCACTACAA-TGCCAGGGAA-ATAAGATTCG-C-T-GCCTTCAGCTTTAA-
* * * * * * * *
29949936 TTGTTCCGCTGCAATGCCAGAGAAATAAGATTTGTTGCCTTCAGCTTTAATCTGTTCCACTGCAA
60 -T-CT-CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTATT-CACTGCAA
* * ** *
29950001 TGCCAGAAAAATAAGATTCGCTGTCTTC
120 CGCTAGGGAAATAAGATTCGCTGCCTTC
* * ** ** ** * * * **
29950029 AG------TCTGATCCACTGCAACT-TTAGGGGGATAAGGCT-GGTGGCTTCA-ATTTGCTC-CA
1 AGCTTTAATCTGTTCCACTACAA-TGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCA
* ** * ** * * * *
29950084 TTGCAACTTCA-GGAAGATAAGATTCGCCAT-AATTCGTAGCTTTGATCTGTTCCATTGCAATGC
65 CTGCAACGCCAGGGAA-AAAAGATTCG-C-TGCCTTC--AGCTTT-AACTATT-CACTGCAACGC
*
29950147 TAGGGAGAA-AAGATTCGTTGCCTTC
123 TAGGGA-AATAAGATTCGCTGCCTTC
* * * *
29950172 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGATTCGCTGCCTTCAGCTTTAATCTGTT
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T
* * * * *
29950237 CCACTGCAACCCCAGGGAAAAAAGATTTGTTGCCTTCAGCTTTAATCTGGTCCACTGCAACGCTA
63 -CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CT-ATTCACTGCAACGCTA
29950302 GGGAAATAAGATTCGCTGCCTTC
125 GGGAAATAAGATTCGCTGCCTTC
* * * ** * * * *
29950325 AGCTTTAATTTGTTCCACTGCAACGTTAGGGAAATAAGATTCACTGCCTCCAGCCTTAATCT-AT
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCAC
* * * * *
29950389 TGCAATGCCAGGGAAAAAAGATTCACTACCCTCAGCTTTAATCTATTCCACTGCAATGCTTA-GG
66 TGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTATT-CACTGCAACGC-TAGGG
* *
29950453 AAA-AAGATTCACCGCCTTC
128 AAATAAGATTCGCTGCCTTC
* * * *
29950472 AGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATAAGATTCGCTGCTTTCAGCTTTAATCT-AC
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCAC
* * * * * * * * * *
29950536 TTCAACACCAGGGAAATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGCA
66 TGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTATT-CACTGCAACGCTAGGGA
*
29950601 AATAAGATTCGTTGCCTTC
129 AATAAGATTCGCTGCCTTC
* * * * *** * * *
29950620 ATCTTTAATCTATT---GT--AACGCCAGGGAAATAAGATTTATTGCTTTCAGCCTTAAT-TTAC
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCAC
* * * * *
29950679 TACAACGCCAGGGAAAAGAGATTCGCTGCCCTCAACTTTAATCTATTCCACTGCATCGCCT-GGG
66 TGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTATT-CACTGCAACG-CTAGGG
* *
29950743 AAAAAAGATTCACTGCCTTC
128 AAATAAGATTCGCTGCCTTC
* * *
29950763 AGCTTTAATC---T--ACTACAACGCTAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTT
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T
* ** *
29950823 CCATTGCAACGCCA-ACAAAATAAGATTCACTGCCTTCAGCTTTAA-T-TT-ACTGCAACGCTAG
63 -CACTGCAACGCCAGGGAAAA-AAGATTCGCTGCCTTCAGCTTTAACTATTCACTGCAACGCTAG
** *
29950884 GGAAATAAGATTCATTGCCTTT
126 GGAAATAAGATTCGCTGCCTTC
* * * * *
29950906 TGCTTTAATCTGTTCTATTACAATGCCAAGGAAATAAGATTCGCTGCCTTGAGCTTTAATCT-AC
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCAC
* * * * * * * ** * *
29950970 TGGAATGCCAGGGAAAAAAGATTCACTACCTTCAACCTTAATCTGTTCCACTGCATTGCCAAGGA
66 TGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTATT-CACTGCAACGCTAGGGA
* *
29951035 AAAAAGATTTGCTGCCTTC
129 AATAAGATTCGCTGCCTTC
* * * *
29951054 AGCTTTAATCTATTCCACTACATTGCCAAGGGAAA-AAGATTTGCTGCCTTTAGCTTTAATCT-A
1 AGCTTTAATCTGTTCCACTACAATGCC-AGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCA
* * * * * * * *
29951117 CTTCAATGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATTTATTCCATTGCAATGCTAAGG
65 CTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAA-CTATT-CACTGCAACGCTAGGG
29951182 AAATAAGATTCGCTGCCTTC
128 AAATAAGATTCGCTGCCTTC
* *
29951202 AGCTTTAATCTGTTCCACTGCAATGCCTGGGAAATAAGATTCGCTGTCC-TCAGCTTTAATCTGT
1 AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTG-CCTTCAGCTTTAATC---
*
29951266 TCCACTACAACGCCCA-GGAAAAAAGATTCGC
62 T-CACTGCAACG-CCAGGGAAAAAAGATTCGC
29951297 CATAATAACT
Statistics
Matches: 1107, Mismatches: 235, Indels: 154
0.74 0.16 0.10
Matches are distributed among these distances:
139 3 0.00
140 18 0.02
141 4 0.00
142 4 0.00
143 251 0.23
144 8 0.01
145 8 0.01
146 8 0.01
147 138 0.12
148 357 0.32
149 34 0.03
150 29 0.03
151 91 0.08
152 3 0.00
153 120 0.11
154 6 0.01
155 3 0.00
156 18 0.02
157 4 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (147 bp):
AGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTCAC
TGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAACTATTCACTGCAACGCTAGGGAAA
TAAGATTCGCTGCCTTC
Found at i:29951656 original size:24 final size:24
Alignment explanation
Indices: 29951624--29951700 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
29951614 CAGATTGCCC
29951624 CCACTATAATCTTCAAGGTTCAAT
1 CCACTATAATCTTCAAGGTTCAAT
29951648 CCACTATAATCTTCAAGGTTCAAT
1 CCACTATAATCTTCAAGGTTCAAT
* *
29951672 CCACTATAATCTTTAAGGTTCAAG
1 CCACTATAATCTTCAAGGTTCAAT
29951696 CCACT
1 CCACT
29951701 GTACTTTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (24 bp):
CCACTATAATCTTCAAGGTTCAAT
Found at i:29952679 original size:46 final size:46
Alignment explanation
Indices: 29952618--29952746 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
29952608 TTTTTTTAAT
* * *
29952618 TCAAAGTGCCATTTGCGGGTTTTCACTTTGGTCTTTTTTTTAGGAC
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGGAC
* *
29952664 TCAAGGCGCCCTTTGCGGGTTTTCACCTTGGTCTCTTTTTTAGGAC
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGGAC
* *
29952710 TCAAAGCTCCCTTTGCGAGTTTTCACCTTGGTGCTTT
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGT-CTTT
29952747 CTTCTTCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 70 0.96
47 3 0.04
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (46 bp):
TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGGAC
Found at i:29953183 original size:1 final size:1
Alignment explanation
Indices: 29953169--29953296 Score: 58
Period size: 1 Copynumber: 128.0 Consensus size: 1
29953159 TCGGTAGAAG
* * * * * * * * * * *
29953169 TTTTTGTTTCTTTTTTTTGTTCTTTTTTTATTTTGTTTTTATTTTGTTTTTATTTTGTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
29953234 TGTGTTTTTTGTGTTTTTTGTGTTTTTATTTTTTATTTTTTGTTTTTTATTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
29953297 GTCCTCTACT
Statistics
Matches: 83, Mismatches: 44, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (1 bp):
T
Found at i:29953204 original size:16 final size:15
Alignment explanation
Indices: 29953179--29953296 Score: 80
Period size: 14 Copynumber: 7.5 Consensus size: 15
29953169 TTTTTGTTTC
29953179 TTTTTTTTGTTCTTT-
1 TTTTTTTTGTT-TTTA
29953194 TTTTATTTTGTTTTTA
1 TTTT-TTTTGTTTTTA
* *
29953210 TTTTGTTTTTATTTTGTG
1 -TTT-TTTTTGTTTT-TA
*
29953228 TTTTTTTGTGTTTTTTG
1 TTTTTTT-TG-TTTTTA
29953245 TGTTTTTTGTGTTTTTA
1 T-TTTTTT-TGTTTTTA
* *
29953262 TTTTTTAT-TTTTTG
1 TTTTTTTTGTTTTTA
*
29953276 TTTTTTAT-TTTTTA
1 TTTTTTTTGTTTTTA
29953290 TTTTTTT
1 TTTTTTT
29953297 GTCCTCTACT
Statistics
Matches: 87, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
14 24 0.28
15 8 0.09
16 16 0.18
17 24 0.28
18 15 0.17
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTTTTTGTTTTTA
Found at i:29953207 original size:11 final size:10
Alignment explanation
Indices: 29953169--29953298 Score: 97
Period size: 11 Copynumber: 12.7 Consensus size: 10
29953159 TCGGTAGAAG
29953169 TTTTTGTTTCT
1 TTTTTGTTT-T
*
29953180 TTTTT-TTGT
1 TTTTTGTTTT
*
29953189 TCTTT-TTTT
1 TTTTTGTTTT
*
29953198 ATTTTGTTTT
1 TTTTTGTTTT
29953208 TATTTTGTTTT
1 T-TTTTGTTTT
*
29953219 TATTTTGTGTT
1 T-TTTTGTTTT
*
29953230 TTTTTG-TGT
1 TTTTTGTTTT
29953239 TTTTTGTGTTT
1 TTTTTGT-TTT
*
29953250 TTTGTGTTTT
1 TTTTTGTTTT
*
29953260 TATTTT-TTAT
1 T-TTTTGTTTT
29953270 TTTTTGTTTT
1 TTTTTGTTTT
*
29953280 TTATTTTTTATT
1 TT-TTTGTT-TT
29953292 TTTTTGT
1 TTTTTGT
29953299 CCTCTACTGC
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
9 22 0.23
10 24 0.25
11 45 0.47
12 4 0.04
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.82
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:29953241 original size:9 final size:9
Alignment explanation
Indices: 29953221--29953260 Score: 71
Period size: 9 Copynumber: 4.3 Consensus size: 9
29953211 TTTGTTTTTA
29953221 TTTTGTGTTT
1 TTTTGTG-TT
29953231 TTTTGTGTT
1 TTTTGTGTT
29953240 TTTTGTGTT
1 TTTTGTGTT
29953249 TTTTGTGTT
1 TTTTGTGTT
29953258 TTT
1 TTT
29953261 ATTTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 23 0.77
10 7 0.23
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (9 bp):
TTTTGTGTT
Found at i:29953258 original size:41 final size:38
Alignment explanation
Indices: 29953191--29953287 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 38
29953181 TTTTTTGTTC
* * *
29953191 TTTTTT-TATTTTGTTTTTATTTTGTTTTTATTTTGTGTT
1 TTTTTTGTTTTTTGTTTTTATTGTGTTTTTATTTT-T-TA
29953230 TTTTTGTGTTTTTTGTGTTTT-TTGTGTTTTTATTTTTTA
1 TTTTT-TGTTTTTTGT-TTTTATTGTGTTTTTATTTTTTA
*
29953269 TTTTTTGTTTTTTATTTTT
1 TTTTTTGTTTTTTGTTTTT
29953288 TATTTTTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
37 4 0.08
38 9 0.18
39 11 0.22
40 2 0.04
41 21 0.41
42 4 0.08
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.82
Consensus pattern (38 bp):
TTTTTTGTTTTTTGTTTTTATTGTGTTTTTATTTTTTA
Found at i:29953266 original size:7 final size:7
Alignment explanation
Indices: 29953256--29953295 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
29953246 GTTTTTTGTG
29953256 TTTTTAT
1 TTTTTAT
29953263 TTTTTAT
1 TTTTTAT
*
29953270 TTTTTGT
1 TTTTTAT
29953277 TTTTTAT
1 TTTTTAT
29953284 TTTTTAT
1 TTTTTAT
29953291 TTTTT
1 TTTTT
29953296 TGTCCTCTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:29953279 original size:28 final size:28
Alignment explanation
Indices: 29953168--29953296 Score: 95
Period size: 28 Copynumber: 4.5 Consensus size: 28
29953158 TTCGGTAGAA
*
29953168 GTTTTTGTTTCTTTTTTT-TGTTCTTTT-T
1 GTTTTTATTT-TTTTTTTGTGTT-TTTTGT
* * * *
29953196 TTATTTTGTTTTTATTTTGTTTTTATTTTGT
1 GT-TTTTATTTTTTTTTTG-TGTT-TTTTGT
*
29953227 GTTTTT-TTGTGTTTTTTGTGTTTTTTGT
1 GTTTTTATT-TTTTTTTTGTGTTTTTTGT
* *
29953255 GTTTTTATTTTTTATTTTTTGTTTTTTAT
1 GTTTTTATTTTTT-TTTTGTGTTTTTTGT
29953284 -TTTTTATTTTTTT
1 GTTTTTATTTTTTT
29953297 GTCCTCTACT
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 34 0.41
29 28 0.34
30 18 0.22
31 2 0.02
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.82
Consensus pattern (28 bp):
GTTTTTATTTTTTTTTTGTGTTTTTTGT
Found at i:29958782 original size:3 final size:3
Alignment explanation
Indices: 29958774--29958803 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
29958764 AACAAGAGTC
29958774 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
29958804 GTAGTAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:29958901 original size:18 final size:19
Alignment explanation
Indices: 29958865--29958902 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
29958855 ATAAAAGGAT
29958865 ATAAAATAATAATTAATGA
1 ATAAAATAATAATTAATGA
*
29958884 ATAAAATAATCA-TAATGA
1 ATAAAATAATAATTAATGA
29958902 A
1 A
29958903 AATAGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAATAATAATTAATGA
Found at i:29958926 original size:9 final size:8
Alignment explanation
Indices: 29958909--29958937 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
29958899 TGAAAATAGT
29958909 AATAAAAA
1 AATAAAAA
29958917 AATAAAAA
1 AATAAAAA
29958925 AATAAAAA
1 AATAAAAA
29958933 AATAA
1 AATAA
29958938 GTAGAGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:29964698 original size:16 final size:16
Alignment explanation
Indices: 29964647--29964698 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
29964637 CCCACGTTTC
*
29964647 TTTTTCAAGCTCTCTC
1 TTTTTCAAGCTCTCTT
* *
29964663 TTTTTC-A-CTTTTTT
1 TTTTTCAAGCTCTCTT
29964677 TCTTTTCAAGCTCTCTT
1 T-TTTTCAAGCTCTCTT
29964694 TTTTT
1 TTTTT
29964699 TTCACTCGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.18
15 6 0.21
16 11 0.39
17 6 0.21
ACGTcount: A:0.10, C:0.23, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTTTCAAGCTCTCTT
Found at i:29966119 original size:28 final size:28
Alignment explanation
Indices: 29966079--29966139 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
29966069 TAACAGAACA
*
29966079 AAACAAGGTGGGCTTTAGCCCAATACAG
1 AAACAAGGTGGGCCTTAGCCCAATACAG
29966107 AAACAAGGTGGGCCTTAGCCCAATACAG
1 AAACAAGGTGGGCCTTAGCCCAATACAG
29966135 AAACA
1 AAACA
29966140 GTATGCAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (28 bp):
AAACAAGGTGGGCCTTAGCCCAATACAG
Found at i:29966664 original size:27 final size:27
Alignment explanation
Indices: 29966634--29966686 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
29966624 ACCAAGCGTA
* *
29966634 TTTCGATAATTTCACAGATTGGGGGTG
1 TTTCGATAATTTCACAAACTGGGGGTG
*
29966661 TTTCGATAATTTTACAAACTGGGGGT
1 TTTCGATAATTTCACAAACTGGGGGT
29966687 ATTTTAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (27 bp):
TTTCGATAATTTCACAAACTGGGGGTG
Found at i:29966689 original size:54 final size:53
Alignment explanation
Indices: 29966574--29966757 Score: 124
Period size: 54 Copynumber: 3.4 Consensus size: 53
29966564 TTACCCTATA
* * * * *
29966574 AGGGTATTTCGGTAATCTT-AC-CATACAGGGGTATTTCAAT-AATTTCAAAAACCA
1 AGGGTATTT-GATAAT-TTCACACAT-CAGGGGTGTTTCAGTAAATTT-ACAAACCG
* * ** * *
29966628 AGCGTATTTCGATAATTTCACAGATTGGGGGTGTTTC-GATAATTTTACAAACTG
1 AGGGTATTT-GATAATTTCACACATCAGGGGTGTTTCAG-TAAATTTACAAACCG
* * * *
29966682 GGGGTATTTTAGTAATTTTACACATCAGGGGTGTTTCAGTAAATTTGCAAACCG
1 AGGGTATTTGA-TAATTTCACACATCAGGGGTGTTTCAGTAAATTTACAAACCG
*
29966736 AGGGTATTTAGGTAATTTCACA
1 AGGGTATTT-GATAATTTCACA
29966758 AATAGAGGGT
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
53 3 0.03
54 88 0.90
55 7 0.07
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (53 bp):
AGGGTATTTGATAATTTCACACATCAGGGGTGTTTCAGTAAATTTACAAACCG
Found at i:29971926 original size:25 final size:26
Alignment explanation
Indices: 29971892--29971959 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
29971882 CTATACATGT
*
29971892 ATGCTCACACGAACTGTGAA-TCGGC
1 ATGCTCACACGAGCTGTGAATTCGGC
* *
29971917 ATGCTCACACGAGCT-TTAATTCGGT
1 ATGCTCACACGAGCTGTGAATTCGGC
*
29971942 ATGCTCACATGAGCTGTG
1 ATGCTCACACGAGCTGTG
29971960 GGTCAGAACG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.08
25 32 0.89
26 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (26 bp):
ATGCTCACACGAGCTGTGAATTCGGC
Found at i:29981197 original size:18 final size:18
Alignment explanation
Indices: 29981174--29981209 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29981164 CTTTGTACAG
29981174 AATTCAAAATATGTTCTT
1 AATTCAAAATATGTTCTT
29981192 AATTCAAAATATGTTCTT
1 AATTCAAAATATGTTCTT
29981210 GTTTGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
AATTCAAAATATGTTCTT
Found at i:29981819 original size:42 final size:42
Alignment explanation
Indices: 29981685--29981864 Score: 190
Period size: 42 Copynumber: 4.3 Consensus size: 42
29981675 CTCGGTGGAT
29981685 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
* **
29981726 TCAGCACATAGCAACC-CCTTTCACAA-TCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-A-AATTCAGTGATACGG-GGAA
* *
29981769 TCAACACTTA-CTAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGC-AACCACCTTTAAATTCAGTGATACGGGGAA
* * * *
29981811 TCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAA
*
29981853 TTAGCACTTAGC
1 TCAGCACTTAGC
29981865 GACCCCTCAG
Statistics
Matches: 115, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 17 0.15
42 60 0.52
43 31 0.27
44 5 0.04
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
Found at i:29981823 original size:85 final size:84
Alignment explanation
Indices: 29981677--29981840 Score: 242
Period size: 85 Copynumber: 1.9 Consensus size: 84
29981667 ATCCGTTACT
* *
29981677 CGGTGGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
29981742 -CCTTTCACAATCAAAGATA
66 ACCTTT-ACAATCAAAGATA
* *
29981761 CGGTGGAATCAACACTTA-CTAACCACCTTTATATTCAGTGATACGGGGAATCAGCACTTAGCAA
1 CGGTGGAATCAACACTTAGC-AACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAA
*
29981825 CCACCTTTAGAATCAA
64 CCACCTTTACAATCAA
29981841 TAATTCAGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
83 1 0.01
84 23 0.32
85 43 0.60
86 5 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAACACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
ACCTTTACAATCAAAGATA
Found at i:29981874 original size:26 final size:26
Alignment explanation
Indices: 29981845--29981897 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
29981835 AATCAATAAT
29981845 TCAGGGAAT-TAGCACTTAGCGACCCC
1 TCAGGGAATCTA-CACTTAGCGACCCC
29981871 TCAGGGAATCTACACTTAGCGACCCC
1 TCAGGGAATCTACACTTAGCGACCCC
29981897 T
1 T
29981898 TTTCATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (26 bp):
TCAGGGAATCTACACTTAGCGACCCC
Found at i:29982269 original size:30 final size:30
Alignment explanation
Indices: 29982234--29982295 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
29982224 TCATTAACTC
29982234 AAACTTTGGCAAAATTACAATTTTGCCCCA
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
* * * * *
29982264 AAACTTTTGCATATTTACACTTTTGTCCCA
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
29982294 AA
1 AA
29982296 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCA
Found at i:29986382 original size:32 final size:34
Alignment explanation
Indices: 29986334--29986403 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
29986324 ATACGACATG
29986334 CAGTATCAGTCTGGGCCTAAGCCCTAA-A-AGTAA
1 CAGTATCAGTCTGGGCCTAAG-CCTAATACAGTAA
* *
29986367 CAGTAT-AGTGTGGGCCTTAGCCTAATACAGTAA
1 CAGTATCAGTCTGGGCCTAAGCCTAATACAGTAA
29986400 CAGT
1 CAGT
29986404 GTGGGCCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 13 0.39
33 15 0.45
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTATCAGTCTGGGCCTAAGCCTAATACAGTAA
Found at i:29986431 original size:28 final size:28
Alignment explanation
Indices: 29986373--29986431 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
29986363 GTAACAGTAT
* *
29986373 AGTGTGGGCCTTAGCCTAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
*
29986401 AGTGTGGGCCTTAGCCCAATACAATATC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
29986429 AGT
1 AGT
29986432 ACAGTGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAC
Found at i:29986437 original size:33 final size:27
Alignment explanation
Indices: 29986366--29986423 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
29986356 CCTAAAAGTA
*
29986366 ACAGTATAGTGTGGGCCTTAGCCTAAT
1 ACAGTACAGTGTGGGCCTTAGCCTAAT
*
29986393 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGT-ACAGTGTGGGCCTTAGCCTAAT
29986421 ACA
1 ACA
29986424 ATATCAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTTAGCCTAAT
Found at i:29986568 original size:26 final size:26
Alignment explanation
Indices: 29986539--29986605 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
29986529 ACCAATACCG
29986539 CAGCAAAGCTGCCAGTAGT-AGCATCA
1 CAGCAAAGCTGCCAGTA-TCAGCATCA
* * * *
29986565 CAGCAGAGCTACCAGTATCAGTATCG
1 CAGCAAAGCTGCCAGTATCAGCATCA
29986591 CAGCAAAGCTGCCAG
1 CAGCAAAGCTGCCAG
29986606 AATAGTATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 33 0.97
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTATCAGCATCA
Found at i:29986832 original size:27 final size:27
Alignment explanation
Indices: 29986776--29987321 Score: 422
Period size: 27 Copynumber: 20.3 Consensus size: 27
29986766 GGGTATAATA
** *
29986776 GTCATTTTACCC-TACGGGGTATTTTA
1 GTCATTTTACCCTTTGGGGGTATTTTG
*
29986802 GTCATTTTACCCTTTGGGGGTATTTTT
1 GTCATTTTACCCTTTGGGGGTATTTTG
* *
29986829 GTCATTTTACCCTTTGGGAGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* *
29986856 GTCATTTTA-CCTTTCGAGGGTATTTTA
1 GTCATTTTACCCTTT-GGGGGTATTTTG
* * * *
29986883 GTCATTTTACCCATTAGGGTTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* * **
29986910 GTTATTTTTCCCTAAGGGGGTATTTCT-
1 GTCATTTTACCCTTTGGGGGTATTT-TG
* * *
29986937 GTCATTTTACCCTTCGGAGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* * * *
29986964 ATCATTTTACCTTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* * * *** *
29986991 ATTATTTTACTCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* ** *
29987018 ATCATTTTACCCTTTGGGCATATTTTA
1 GTCATTTTACCCTTTGGGGGTATTTTG
* *
29987045 GTCATTTTA-TCTTTAGGGGGTATTTCG
1 GTCATTTTACCCTTT-GGGGGTATTTTG
* * *
29987072 ATCATTTTA-CCTTTCAGGGGTATTTCG
1 GTCATTTTACCCTTT-GGGGGTATTTTG
* * * *
29987099 ATTATTTTACCTTTTGGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* * *
29987126 GTTATTTTACCTTTTGGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* *
29987153 ATCATTTTACCCTTCT-GGGGTATTTCG
1 GTCATTTTACCCTT-TGGGGGTATTTTG
29987180 GTCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* *
29987207 GTTATTTTA-CCTTTCGAGGGTATTTTG
1 GTCATTTTACCCTTT-GGGGGTATTTTG
* * *
29987234 GTCATTTTATCCTTTGGTGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
*** * *
29987261 GTCATTTTACCCTTCAAGGCTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTTG
* * * **
29987288 GTCATTTTATCCTTTAGGAGTATTTCA
1 GTCATTTTACCCTTTGGGGGTATTTTG
29987315 GTCATTT
1 GTCATTT
29987322 GCCCACGAAT
Statistics
Matches: 423, Mismatches: 86, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
26 27 0.06
27 382 0.90
28 14 0.03
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.47
Consensus pattern (27 bp):
GTCATTTTACCCTTTGGGGGTATTTTG
Found at i:29994339 original size:28 final size:28
Alignment explanation
Indices: 29994281--29994339 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
29994271 GTAACAGTGT
*
29994281 AGTGTGGGCCTTAGCCAAATACAGTAAC
1 AGTGTGGGCCTTAGCCAAATACAATAAC
* *
29994309 AGTGTGGGCCTTAGCCCAATACAATATC
1 AGTGTGGGCCTTAGCCAAATACAATAAC
29994337 AGT
1 AGT
29994340 ACAGTGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCAAATACAATAAC
Found at i:29994755 original size:54 final size:53
Alignment explanation
Indices: 29994625--29994929 Score: 285
Period size: 54 Copynumber: 5.7 Consensus size: 53
29994615 AAAGGTATAA
* * *
29994625 CAGTCATTTTATCCTAT-GGGGGTATTTTGGTCATTTTACCCTTGGGGGTATTT
1 CAGTCATTTTACCCT-TCGGGGGTATTTTGGTCATTTTACCTTTAGGGGTATTT
* * * * *
29994678 -TGATCATTTTACCTTTTGGGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTT
1 CAG-TCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCTTT-AGGGGTATTT
* * * *
29994732 CAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACTTTTAAGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCTTT-AGGGGTATTT
* * *
29994786 TAGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTT-GGGGATATTT
1 CAGTCATTTTACCCTTCGGGGGTATTTTGGTCATTTTA-CCTTTAGGGG-TATTT
* * * ** * *
29994840 AAGTTATTTTACCTTTCATGGGTATTTTGATCATTTTACCCTTTGGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTTTGGTCATTTTA-CCTTTAGGGGTATTT
* * *
29994894 C-GATCATTTTACCCTACAGGGGTATTTCGGTCATTT
1 CAG-TCATTTTACCCTTCGGGGGTATTTTGGTCATTT
29994930 GGCTACGAGT
Statistics
Matches: 209, Mismatches: 35, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 39 0.19
54 159 0.76
55 9 0.04
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (53 bp):
CAGTCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCTTTAGGGGTATTT
Found at i:29994795 original size:81 final size:80
Alignment explanation
Indices: 29994626--29994929 Score: 316
Period size: 81 Copynumber: 3.8 Consensus size: 80
29994616 AAGGTATAAC
* * * * * *
29994626 AGTCATTTTATCCTAT-GGGGGTATTTTGGTCATTTTACCCTT-GGGGGTATTTTGATCATTTTA
1 AGTCATTTTA-CCTTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
*
29994689 CCTTTTGGGGGTATTTT
65 -CTTTTAGGGGTATTTT
** *
29994706 AGTCATTTTACCTTTCAAGGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTA
1 AGTCATTTTACCTTTCGGGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
29994770 CTTTTAAGGGGTATTTT
65 CTTTT-AGGGGTATTTT
* * ** *
29994787 AGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTG-GGGATATTTAAGTTATTTTA
1 AGTCATTTTACCTTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGG-TATTTCGGTCATTTTA
* *
29994851 CCTTTCATGGGTATTTT
65 -CTTTTAGGGGTATTTT
*
29994868 -GATCATTTTACCCTTT-GGGGGTATTTCGATCATTTTACCCTAC-AGGGGTATTTCGGTCATTT
1 AG-TCATTTTA-CCTTTCGGGGGTATTTCGATCATTTTACCCTTCGA-GGGTATTTCGGTCATTT
29994930 GGCTACGAGT
Statistics
Matches: 189, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
79 4 0.02
80 40 0.21
81 133 0.70
82 12 0.06
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.46
Consensus pattern (80 bp):
AGTCATTTTACCTTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
TTTTAGGGGTATTTT
Found at i:29994838 original size:27 final size:27
Alignment explanation
Indices: 29994628--29994929 Score: 242
Period size: 27 Copynumber: 11.2 Consensus size: 27
29994618 GGTATAACAG
* * * *
29994628 TCATTTTATCCTATGGGGGTATTTTGG
1 TCATTTTACCCTTTGGGGGTATTTCGA
*
29994655 TCATTTTACCC-TTGGGGGTATTTTGA
1 TCATTTTACCCTTTGGGGGTATTTCGA
* *
29994681 TCATTTTACCTTTTGGGGGTATTT-TA
1 TCATTTTACCCTTTGGGGGTATTTCGA
**
29994707 GTCATTTTA-CCTTTCAAGGGTATTTC-A
1 -TCATTTTACCCTTT-GGGGGTATTTCGA
* * *
29994734 GTCATTTTACCCTTCGAGGGTATTTCGG
1 -TCATTTTACCCTTTGGGGGTATTTCGA
* * * *
29994762 TTATTTTA-CTTTTAAGGGGTATTT-TA
1 TCATTTTACCCTTT-GGGGGTATTTCGA
*
29994788 GTCATTTTACCCTTCGGGGGTATTTCGA
1 -TCATTTTACCCTTTGGGGGTATTTCGA
* *
29994816 TCATTTTACCCTTTGGGGATATTT-AA
1 TCATTTTACCCTTTGGGGGTATTTCGA
* ** *
29994842 GTTATTTTA-CCTTTCATGGGTATTTTGA
1 -TCATTTTACCCTTT-GGGGGTATTTCGA
29994870 TCATTTTACCCTTTGGGGGTATTTCGA
1 TCATTTTACCCTTTGGGGGTATTTCGA
*** *
29994897 TCATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCCTTTGGGGGTATTTCGA
29994924 TCATTT
1 TCATTT
29994930 GGCTACGAGT
Statistics
Matches: 222, Mismatches: 39, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
26 37 0.17
27 171 0.77
28 14 0.06
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (27 bp):
TCATTTTACCCTTTGGGGGTATTTCGA
Found at i:29999255 original size:28 final size:29
Alignment explanation
Indices: 29999222--29999284 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
29999212 CAGTAACAGT
* *
29999222 ACAGTGTTG-GCCTCATCCCAAAACAGAA
1 ACAGTGTTGAGCCTAAGCCCAAAACAGAA
* *
29999250 ACAGTG-TGAGCCTAAGCCCGATACAGAA
1 ACAGTGTTGAGCCTAAGCCCAAAACAGAA
29999278 ACAGTGT
1 ACAGTGT
29999285 GGTGCAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.17
Consensus pattern (29 bp):
ACAGTGTTGAGCCTAAGCCCAAAACAGAA
Found at i:30000960 original size:145 final size:145
Alignment explanation
Indices: 30000762--30001035 Score: 494
Period size: 145 Copynumber: 1.9 Consensus size: 145
30000752 AACTCAAGGT
** * *
30000762 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAACCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
30000827 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
30000892 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
30000907 ACTTACCTTTTCCGCTGTCCAAAACCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAACCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
30000972 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
30001036 TACTTTAAAC
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 123 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAACCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:30001081 original size:29 final size:29
Alignment explanation
Indices: 30001018--30001085 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
30001008 TAATCAACCA
*
30001018 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30001047 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30001076 CGCACACTTA
1 CGCACACTTA
30001086 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30001165 original size:174 final size:174
Alignment explanation
Indices: 30000875--30001232 Score: 689
Period size: 174 Copynumber: 2.1 Consensus size: 174
30000865 ATCAACCGCG
30000875 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAACCGACTCGA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAACCGACTCGA
30000940 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
30001005 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
* *
30001049 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAACCGACTCGA
30001114 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
*
30001179 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCG
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
30001223 CACACTTAGT
1 CACACTTAGT
30001233 TCTGTACAAT
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 181 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAACCGACTCGA
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
Found at i:30001226 original size:29 final size:30
Alignment explanation
Indices: 30001187--30001265 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
30001177 CTTAATAATC
30001187 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
* *
30001217 AACTCGCACACTTAGT-TC-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30001246 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30001266 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30009548 original size:145 final size:145
Alignment explanation
Indices: 30009350--30009623 Score: 494
Period size: 145 Copynumber: 1.9 Consensus size: 145
30009340 AACTCAAGGT
* * *
30009350 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
30009415 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGAACACTTAGTGCCATGC
30009480 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
30009495 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
30009560 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGAACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGAACACTTAGTGCCATG
30009624 TACTTTAAAC
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 123 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGAACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:30009753 original size:174 final size:174
Alignment explanation
Indices: 30009463--30009822 Score: 684
Period size: 174 Copynumber: 2.1 Consensus size: 174
30009453 ATCAACCGCG
30009463 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
30009528 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
30009593 TAATAATCAACCACGAACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGAACACTTAGTGCCATGTACTTTAAACTCA
*
30009637 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
30009702 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
* * *
30009767 TAATAATCAACCACGCATACTTAGTGCCATGTACTTTAAACTCG
131 TAATAATCAACCACGAACACTTAGTGCCATGTACTTTAAACTCA
30009811 CACACTTAGTGC
1 CACACTTAGTGC
30009823 TGTACAATTT
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 182 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGAACACTTAGTGCCATGTACTTTAAACTCA
Found at i:30009817 original size:29 final size:30
Alignment explanation
Indices: 30009775--30009853 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
30009765 CTTAATAATC
*
30009775 AACCACGCATACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30009805 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30009834 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30009854 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30011521 original size:26 final size:26
Alignment explanation
Indices: 30011470--30011521 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30011460 ACCAATATCA
* * *
30011470 CAGCATAGCTGCCAGTAGTAATAATG
1 CAGCAGAGCTACCAGTAGTAAGAATG
*
30011496 CAGCAGAGCTACCAGTAGTTAGAATG
1 CAGCAGAGCTACCAGTAGTAAGAATG
30011522 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
CAGCAGAGCTACCAGTAGTAAGAATG
Found at i:30011558 original size:22 final size:22
Alignment explanation
Indices: 30011528--30011579 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
30011518 AATGGCTAAG
* * *
30011528 AGCCGTAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
30011550 AGCTATAAACAGAATGGCTACA
1 AGCCATAAACAGAATAGCTACA
30011572 AGCCATAA
1 AGCCATAA
30011580 GTACAGTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:30011658 original size:32 final size:32
Alignment explanation
Indices: 30011591--30011866 Score: 238
Period size: 32 Copynumber: 8.6 Consensus size: 32
30011581 TACAGTAATG
* * * * *
30011591 TGATTGGCTCAAAGCCATCAGTAGCAGTGA-AA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* *
30011623 TGATCGGCACACAGCCATCAGAAACGGTAAC-A
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* * * * *
30011655 TGATCGGCACAAAGCTAGCAGCAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* * * * *
30011687 TGACCGGCACACAGCCATTAGTAACAGTGA-AA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
*
30011719 TGATCAGCACAAAGCCATCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
*
30011751 TGATTC-GCACAAAGCCATCAGTAACAGTACTA
1 TGA-TCGGCACAAAGCCATCAGTAACGGTACTA
* * *
30011783 TGATCGACACAAAGCCATTAGTAACGATACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
* * *
30011815 TGATCGGTACAAAGCCATCATTAATGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
*
30011847 TGATCGGTACAAAGCCATCA
1 TGATCGGCACAAAGCCATCA
30011867 ACAGCACCGT
Statistics
Matches: 200, Mismatches: 39, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
31 3 0.01
32 195 0.98
33 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:30011785 original size:96 final size:96
Alignment explanation
Indices: 30011600--30011866 Score: 301
Period size: 96 Copynumber: 2.8 Consensus size: 96
30011590 GTGATTGGCT
* * * *
30011600 CAAAGCCATCAGTAGCAGTGAAATGATCGGCACACAGCCATCAGAAACGGTAAC-ATGATCGGCA
1 CAAAGCCATTAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACGGT-ACTATGATCGGCA
* * * *
30011664 CAAAGCTAGCAGCAGCAGTGATATGACCGGCA
65 CAAAGCCATCAGCAACAGTGATATGACCGACA
* *
30011696 CACAGCCATTAGTAACAGTGAAATGATCAGCACAAAGCCATCAGTAACGGTACTATGATTC-GCA
1 CAAAGCCATTAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACGGTACTATGA-TCGGCA
* *
30011760 CAAAGCCATCAGTAACAGT-ACTATGATCGACA
65 CAAAGCCATCAGCAACAGTGA-TATGACCGACA
* * * * *
30011792 CAAAGCCATTAGTAAC-GAT-ACTATGATCGGTACAAAGCCATCATTAATGGTACTATGATCGGT
1 CAAAGCCATTAGTAACAG-TGA-AATGATCGGCACAAAGCCATCAGTAACGGTACTATGATCGGC
30011855 ACAAAGCCATCA
64 ACAAAGCCATCA
30011867 ACAGCACCGT
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
95 7 0.05
96 137 0.94
97 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (96 bp):
CAAAGCCATTAGTAACAGTGAAATGATCGGCACAAAGCCATCAGTAACGGTACTATGATCGGCAC
AAAGCCATCAGCAACAGTGATATGACCGACA
Found at i:30012543 original size:27 final size:27
Alignment explanation
Indices: 30012144--30012557 Score: 413
Period size: 27 Copynumber: 15.4 Consensus size: 27
30012134 GGGAAAAATT
* * *
30012144 GTCA-TTTACCC-ACAAGGGCATTAAG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
30012169 GTCATTTTACCCTACAGAGGTAATACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
30012196 ATCATTTTACCCTATAGGGATATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
30012223 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
** *
30012250 GTCATTTTACCCTACAAAGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
30012277 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
30012304 ATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * *
30012331 GTTATTTTACCTTATAGGTGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
30012358 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* ** *
30012385 ATCATTTTACCCTACAATGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
*
30012412 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
30012439 GTCATTTTACCCTATAGAGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
30012466 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
30012493 AT-ATTCTACCCTAC-GAGGGTATTTCG
1 GTCATTTTACCCTACAG-GGGTATTACG
* * * ***
30012519 GTTATTTTACCCTATAGGGGCATTTTA
1 GTCATTTTACCCTACAGGGGTATTACG
30012546 GTCATTTTACCC
1 GTCATTTTACCC
30012558 ATCGAGAGTA
Statistics
Matches: 327, Mismatches: 57, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
25 5 0.02
26 27 0.08
27 294 0.90
28 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:30021557 original size:15 final size:16
Alignment explanation
Indices: 30021537--30021566 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30021527 TGTAGCCTTG
30021537 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
30021552 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
30021567 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:30025854 original size:17 final size:18
Alignment explanation
Indices: 30025829--30025863 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30025819 AAATATTAAC
*
30025829 AATTCAATAAA-TTGAAA
1 AATTAAATAAATTTGAAA
30025846 AATTAAATAAATTTGAAA
1 AATTAAATAAATTTGAAA
30025864 TTTAGGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
AATTAAATAAATTTGAAA
Found at i:30031566 original size:40 final size:40
Alignment explanation
Indices: 30031471--30031662 Score: 210
Period size: 40 Copynumber: 4.8 Consensus size: 40
30031461 TTGATTCCTT
* *
30031471 GGCACAAAGCCTTCTAGGCACTAAGCCTGAGT-AC-CACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* * * *
30031509 GGTA-AGAAGCCTACTAGGCGCTAAGCCTGAATAACACACT
1 GGCACA-AAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
30031549 GGCACAAAGCCTGCTAGGCACTAAGCTTGAATATCACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* * * * * *
30031589 GGCACGAAGCTTGCTAGGCATTAAACTTGAATAACACAAC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
30031629 GGCACGAAGCCTGCTAGGCACTAGGCCTGAATAA
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGAATAA
30031663 TTTTAAGGTA
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 26 0.20
39 2 0.02
40 98 0.77
41 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (40 bp):
GGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
Found at i:30031624 original size:80 final size:79
Alignment explanation
Indices: 30031470--30031661 Score: 235
Period size: 80 Copynumber: 2.4 Consensus size: 79
30031460 CTTGATTCCT
* * * * *
30031470 TGGCACAAAGCCTTCTAGGCACTAAGCCTGAGTACCACCGGTAAGAAGCCTACTAGGCGCTAAGC
1 TGGCACAAAGCCTGCTAGGCACTAAGCCTGAATACCACCGGCAAGAAGCCTACTAGGCACTAAAC
30031535 CTGAATAACAC-AC
66 CTGAATAACACAAC
* * * * *
30031548 TGGCACAAAGCCTGCTAGGCACTAAGCTTGAATATCACACCGGCACGAAGCTTGCTAGGCATTAA
1 TGGCACAAAGCCTGCTAGGCACTAAGCCTGAATA-C-CACCGGCAAGAAGCCTACTAGGCACTAA
*
30031613 ACTTGAATAACACAAC
64 ACCTGAATAACACAAC
* *
30031629 -GGCACGAAGCCTGCTAGGCACTAGGCCTGAATA
1 TGGCACAAAGCCTGCTAGGCACTAAGCCTGAATA
30031662 ATTTTAAGGT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
78 31 0.32
79 1 0.01
80 63 0.65
81 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (79 bp):
TGGCACAAAGCCTGCTAGGCACTAAGCCTGAATACCACCGGCAAGAAGCCTACTAGGCACTAAAC
CTGAATAACACAAC
Found at i:30042214 original size:40 final size:40
Alignment explanation
Indices: 30042127--30042436 Score: 408
Period size: 40 Copynumber: 7.8 Consensus size: 40
30042117 TTGATTCACT
* * * * *
30042127 AGCACAAAGCCTACTAAGAACTAAGCCTGAGT-AC-CACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
30042165 AGCACGAAGCCTGCTAGGCGCTAAGCCTAAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
30042205 AGCACGAAGCCTACTAGGCACTAAGCTTGAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
*
30042245 AGCACGAAGCCTGCTAGGCACTAAGCTTGAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* * * * *
30042285 GGCACGAAGCCTACTACGCACTAAGCTTGAATAACACATC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* *
30042325 AGCACGAAGCCTGCTAGGCACTAAGCCTAAATAACACACA
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
* ** *
30042365 AGTATAAAGCTTGCTAGGCACTAAGCCTGAATAACACACC
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
*
30042405 AGCACGAAGCCTACTAGGCACTAAGCCTGAAT
1 AGCACGAAGCCTGCTAGGCACTAAGCCTGAAT
30042437 TACTTCTCCA
Statistics
Matches: 236, Mismatches: 34, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 25 0.11
39 2 0.01
40 209 0.89
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (40 bp):
AGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACACC
Found at i:30052022 original size:27 final size:27
Alignment explanation
Indices: 30051992--30052169 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
30051982 ATATTGAGTC
* * *
30051992 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30052019 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30052046 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30052074 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
30052101 CGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTA-CATAAT-CAACT
* *
30052128 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
30052155 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30052170 GTACAATTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30069749 original size:43 final size:43
Alignment explanation
Indices: 30069700--30069786 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
30069690 TCATATCTCA
*
30069700 TTTCTCATATCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
* * **
30069743 TTTCTCATCTCATATTCATTTATCATATTTTTCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
30069786 T
1 T
30069787 AATCACATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:30070265 original size:8 final size:8
Alignment explanation
Indices: 30070252--30070276 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30070242 TAATTCAATT
30070252 CCCAAGTA
1 CCCAAGTA
30070260 CCCAAGTA
1 CCCAAGTA
30070268 CCCAAGTA
1 CCCAAGTA
30070276 C
1 C
30070277 TCATCTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.40, G:0.12, T:0.12
Consensus pattern (8 bp):
CCCAAGTA
Found at i:30071027 original size:12 final size:12
Alignment explanation
Indices: 30071005--30071039 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
30070995 TATTATGTTT
30071005 TCATT-TTATTA
1 TCATTATTATTA
*
30071016 TCTTTATTATTA
1 TCATTATTATTA
30071028 TCATTATTATTA
1 TCATTATTATTA
30071040 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:30077707 original size:23 final size:23
Alignment explanation
Indices: 30077671--30077718 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
30077661 CAGGTTCTGA
30077671 TTAGGCTTACTTTGGATTTAAAT
1 TTAGGCTTACTTTGGATTTAAAT
* *
30077694 TTAGGTTTATTTTGGATTTAAAT
1 TTAGGCTTACTTTGGATTTAAAT
30077717 TT
1 TT
30077719 TTTCAGAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (23 bp):
TTAGGCTTACTTTGGATTTAAAT
Found at i:30077973 original size:46 final size:46
Alignment explanation
Indices: 30077823--30077973 Score: 123
Period size: 46 Copynumber: 3.2 Consensus size: 46
30077813 GGGCTCTAGC
**
30077823 AAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAA
1 AAATTTAAATAACTATGAAATTTATAAGTTATAGCGTTTTTAAAAA
* * * *** *
30077869 AAATTTAAATGGAA-TAAT-ATATTT-TACATTTAT-GCGATGACAACTAAC
1 AAATTTAAAT--AACT-ATGAAATTTATA-AGTTATAGCGTTTTTAA--AAA
30077917 AAATTTAAATAACTATGAAATTTATAAGTTATAG-GTTTTTAAAAA
1 AAATTTAAATAACTATGAAATTTATAAGTTATAGCGTTTTTAAAAA
30077962 AGAATTTAAATA
1 A-AATTTAAATA
30077974 GAATAATATA
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
45 3 0.04
46 30 0.38
47 26 0.33
48 19 0.24
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (46 bp):
AAATTTAAATAACTATGAAATTTATAAGTTATAGCGTTTTTAAAAA
Done.