Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 110 of 173
Found at i:34128120 original size:87 final size:87
Alignment explanation
Indices: 34127969--34128324 Score: 577
Period size: 87 Copynumber: 4.1 Consensus size: 87
34127959 AGATCAGTGA
*
34127969 AGATTGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
34128034 CTTCCTACATTAACAGCGAAGT
66 CTTCCTGCATTGACAGCGAAGC
* *
34128056 AGATCGAAAACAAAGCCTTACCTCCATCGGTTGCATTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
34128121 CTTCCTGCATTGACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* *
34128143 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
34128208 CTTCCTGCATTGACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* * *
34128230 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
34128295 CCTCCTGCGTCGACAGTGAAGC
66 CTTCCTGCATTGACAGCGAAGC
34128317 AGATCGAA
1 AGATCGAA
34128325 GACGGCGAAT
Statistics
Matches: 250, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 250 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTGACAGCGAAGC
Found at i:34128165 original size:43 final size:43
Alignment explanation
Indices: 34128116--34128252 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
34128106 GATAGCAGAT
*
34128116 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGC
* * * * * * * *
34128159 CTTGCC-T-CTATCGGTTG-CAGTGGAGCTGGT-TAAAGATAACAGAT
1 CTTGCCTTCCT-GC-ATTGACAGCGAAGCAGATCGAAA-ATAA-AG-C
34128203 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGC
34128246 CTTGCCT
1 CTTGCCT
34128253 CCATCGGTTG
Statistics
Matches: 68, Mismatches: 17, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
41 5 0.07
42 14 0.21
43 18 0.26
44 11 0.16
45 15 0.22
46 5 0.07
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGC
Found at i:34128465 original size:131 final size:131
Alignment explanation
Indices: 34128314--34128736 Score: 661
Period size: 131 Copynumber: 3.2 Consensus size: 131
34128304 TCGACAGTGA
**
34128314 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAATAGTAGGGAAACAGATTTAAGCCATAAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCATAAGTC
* * *
34128379 CTATGTTCATGACCAGCAGTGGAGTAGGTTGGAAACTATAGATCTTGTCTCCCTAAGCAGTAGCG
66 CTATGTCCATGACCAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCG
34128444 G
131 G
34128445 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACTA-ATTTAAGCCACT-AG
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAAC-AGATTTAAGCCA-TAAG
* * * * *
34128508 TCCTATGTCCCTGACCAGCATTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGTAGTAG
64 TCCTATGTCCATGACCAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAG
34128573 CGG
129 CGG
** **
34128576 AGCAGATCGAAGACGGAAAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCGCAAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCATAAGTC
* * *
34128641 CTATGTCCTTGACCAGCAGTGGAATAGGTTGGAAACTACAGATATTGTCTCCCTAAGCAGTAGCA
66 CTATGTCCATGACCAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCG
34128706 G
131 G
34128707 AGCAGATCGAAGACGGCGAATCTTATCTTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTC
34128737 AAGTGTAAGG
Statistics
Matches: 265, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
130 1 0.00
131 262 0.99
132 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (131 bp):
AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCATAAGTC
CTATGTCCATGACCAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCG
G
Found at i:34128965 original size:44 final size:44
Alignment explanation
Indices: 34128894--34128977 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
34128884 TGAGAAAACA
* * *
34128894 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGTTGAT
1 AATCCTATCTCCCCGAGGTTACAGTGGAACAGATTAAAGTTGAT
*** *
34128938 AATCCTATCTCCCCGAGGTTGTGGTGGAACGGATTAAAGT
1 AATCCTATCTCCCCGAGGTTACAGTGGAACAGATTAAAGT
34128978 AATGGATCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCCGAGGTTACAGTGGAACAGATTAAAGTTGAT
Found at i:34129704 original size:14 final size:16
Alignment explanation
Indices: 34129685--34129717 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
34129675 TTTTCCTTGA
34129685 TTTTTCTTT-TG-ATT
1 TTTTTCTTTCTGTATT
34129699 TTTTTCTTTCTGTATT
1 TTTTTCTTTCTGTATT
34129715 TTT
1 TTT
34129718 GACTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTCTGTATT
Found at i:34130520 original size:21 final size:22
Alignment explanation
Indices: 34130480--34130521 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
34130470 GATTTGATCC
34130480 TTATTTCAATCTATTCATTTTT
1 TTATTTCAATCTATTCATTTTT
34130502 TTATTT-AAT-TATCTCATTTT
1 TTATTTCAATCTAT-TCATTTT
34130522 GTTGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 10 0.53
22 6 0.32
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTCAATCTATTCATTTTT
Found at i:34132005 original size:25 final size:25
Alignment explanation
Indices: 34131949--34132005 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
34131939 TAGATATAAG
34131949 TATATAAAAGTTAGGAAGTAAAATA
1 TATATAAAAGTTAGGAAGTAAAATA
* * * *
34131974 AAAATAAAAGCTTATGTA-TAAAATA
1 TATATAAAAG-TTAGGAAGTAAAATA
34131999 TATATAA
1 TATATAA
34132006 GCAAACGTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (25 bp):
TATATAAAAGTTAGGAAGTAAAATA
Found at i:34132577 original size:23 final size:22
Alignment explanation
Indices: 34132547--34132591 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
34132537 AAATTAAATC
34132547 TCTAAGATTGCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
34132570 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
34132592 AAGATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:34132594 original size:19 final size:19
Alignment explanation
Indices: 34132547--34132623 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
34132537 AAATTAAATC
*
34132547 TCTAAGATTGCAAAATCATA
1 TCTAAGATTGC-ATATCATA
34132567 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
*
34132589 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
34132608 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34132624 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
22 7 0.14
23 11 0.22
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34143234 original size:14 final size:14
Alignment explanation
Indices: 34143215--34143241 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34143205 TGTTTGGAAC
34143215 AAATTTTACATTAT
1 AAATTTTACATTAT
34143229 AAATTTTACATTA
1 AAATTTTACATTA
34143242 CTTCCTGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTTACATTAT
Found at i:34158804 original size:27 final size:28
Alignment explanation
Indices: 34158774--34158831 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
34158764 ATAGAGCTCG
*
34158774 ATGTGGTAAAACCACC-AATAATC-AATA
1 ATGTAGTAAAACCACCAAATAA-CAAATA
* *
34158801 ATGTAGTGAAACTACCAAATAACAAATA
1 ATGTAGTAAAACCACCAAATAACAAATA
34158829 ATG
1 ATG
34158832 CAATATAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (28 bp):
ATGTAGTAAAACCACCAAATAACAAATA
Found at i:34167373 original size:25 final size:27
Alignment explanation
Indices: 34167304--34167375 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
34167294 TGGGTGTTGC
*
34167304 GTTATATAGTATATATATTTGAGTGGGTT
1 GTTATATA-TATA-ATATATGAGTGGGTT
* *
34167333 GTTGTATATATAATATATGCGTGGGTT
1 GTTATATATATAATATATGAGTGGGTT
34167360 -TTAT-TATATAATATAT
1 GTTATATATATAATATAT
34167376 ATAGGTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 12 0.31
26 3 0.08
27 13 0.33
28 4 0.10
29 7 0.18
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (27 bp):
GTTATATATATAATATATGAGTGGGTT
Found at i:34170457 original size:5 final size:5
Alignment explanation
Indices: 34170447--34170474 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34170437 GTAATTAGTC
34170447 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
34170475 CAAAATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:34171475 original size:33 final size:33
Alignment explanation
Indices: 34171429--34171559 Score: 147
Period size: 33 Copynumber: 4.0 Consensus size: 33
34171419 TTTGGTCTGT
* * *
34171429 TGGTTGGACTAGCTCTTATGAACACTGGTGTGG
1 TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
* * *
34171462 TAGTTGGATTAGCTGTTATGAGCACTGGTATGA
1 TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
* * *
34171495 TGGTTGGATTAACTCTTATGAGCATTGGCGT-A
1 TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
* *
34171527 TTGGTTGGATTAGCTCTTCTGAGCATTGGTGTG
1 -TGGTTGGATTAGCTCTTATGAGCACTGGTGTG
34171560 CTAGAGGGAT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
32 1 0.01
33 80 0.99
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.37
Consensus pattern (33 bp):
TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
Found at i:34177642 original size:67 final size:66
Alignment explanation
Indices: 34177568--34177722 Score: 201
Period size: 63 Copynumber: 2.4 Consensus size: 66
34177558 TAATAGTATA
* *
34177568 ATATATATACACATGTGGTTCGAATGTATGTTTC-AATTTCTTTGAGCTGAATTTAATGTTATGA
1 ATATATATA-ACATGTGGTTCGAATGTATGTTACAAATTT-TTTGAGCTGAACTTAATGTTATGA
34177632 ATT
64 ATT
** *
34177635 ATATATAT---ATGACGTTCGAATGTATGTTACAAATTTTTTTAGCTGAACTTAATGTTATGAAT
1 ATATATATAACATGTGGTTCGAATGTATGTTACAAATTTTTTGAGCTGAACTTAATGTTATGAAT
34177697 T
66 T
*
34177698 ATATATACATACATGTGGTTCGAAT
1 ATATATATA-ACATGTGGTTCGAAT
34177723 ATGTGTTTGC
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
63 51 0.68
64 5 0.07
67 19 0.25
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (66 bp):
ATATATATAACATGTGGTTCGAATGTATGTTACAAATTTTTTGAGCTGAACTTAATGTTATGAAT
T
Found at i:34183414 original size:20 final size:20
Alignment explanation
Indices: 34183389--34183439 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
34183379 TTTATTGGTC
34183389 ATATGTTTACTTACTAAGCT
1 ATATGTTTACTTACTAAGCT
34183409 ATATGTTTACTTACTAAGCT
1 ATATGTTTACTTACTAAGCT
*
34183429 ATATGCTTACT
1 ATATGTTTACT
34183440 CATTTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (20 bp):
ATATGTTTACTTACTAAGCT
Found at i:34189933 original size:42 final size:42
Alignment explanation
Indices: 34189874--34190010 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
34189864 ATTCATTGGT
*
34189874 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* * *
34189916 GGTTGCTAAGTGCTGATTCC-CC--A-ATT-CAT-T---AGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
34189949 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
34189991 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
34190011 CCAGAGGGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 22 0.28
34 2 0.03
36 2 0.03
37 4 0.05
38 4 0.05
39 2 0.03
41 2 0.03
42 40 0.51
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:34189959 original size:75 final size:75
Alignment explanation
Indices: 34189840--34190013 Score: 305
Period size: 75 Copynumber: 2.3 Consensus size: 75
34189830 GAATATAAAG
* * *
34189840 GGGGTTGCTAAGTGCTGATT-CCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
34189904 AAATGTGAAA
66 AAATGTGAAA
34189914 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
*
34189979 AAATGTGAAG
66 AAATGTGAAA
34189989 GGGGTTGCTAAGTGCTGATTCCCCA
1 GGGGTTGCTAAGTGCTGATTCCCCA
34190014 GAGGGGTTGC
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 20 0.21
75 75 0.79
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
AAATGTGAAA
Found at i:34190035 original size:102 final size:102
Alignment explanation
Indices: 34189913--34190113 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
34189903 TAAATGTGAA
* *
34189913 AGGGGTTGCTAAGTGCTGATTCCCC-AATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AGGGGTTGCTAAGTACTGATTCCCCGAA-TCATTAGTGGTTGCTAAGTGCTGATCCCACCGTATC
*
34189977 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAG
65 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAG
* *
34190015 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATCCCACCGTATCT
*
34190080 TAAATGTGAAAGGGGTTGCTAAGTGTTGATTCCC
66 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
34190114 TGACTCATTG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 90 0.98
103 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTACTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATCCCACCGTATCT
TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAG
Found at i:34195113 original size:63 final size:63
Alignment explanation
Indices: 34194979--34195113 Score: 200
Period size: 63 Copynumber: 2.1 Consensus size: 63
34194969 TAGTATAATA
* * * * *
34194979 TATATATACATGTGGTTCGAATGTATGTTTCAATTTCTTTGAGTTGAATTTAATGTTATGAAT
1 TATATATATATGAGGTTCGAATGTATGTTACAATTTCTTTGAGCTGAACTTAATGTTATGAAT
*
34195042 TATATATATATGAGGTTCGAATGTATGTTACAAATTT-TTTTAGCTGAACTTAATGTTATGAAT
1 TATATATATATGAGGTTCGAATGTATGTTAC-AATTTCTTTGAGCTGAACTTAATGTTATGAAT
34195105 TATATATAT
1 TATATATAT
34195114 GTGTGTGTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 60 0.92
64 5 0.08
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.47
Consensus pattern (63 bp):
TATATATATATGAGGTTCGAATGTATGTTACAATTTCTTTGAGCTGAACTTAATGTTATGAAT
Found at i:34197360 original size:12 final size:12
Alignment explanation
Indices: 34197343--34197367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34197333 ACTAATTTGG
34197343 AGTAGTGGTTAA
1 AGTAGTGGTTAA
34197355 AGTAGTGGTTAA
1 AGTAGTGGTTAA
34197367 A
1 A
34197368 TGTGTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (12 bp):
AGTAGTGGTTAA
Found at i:34200338 original size:54 final size:54
Alignment explanation
Indices: 34200280--34200503 Score: 335
Period size: 54 Copynumber: 4.1 Consensus size: 54
34200270 TCTAACAGTC
34200280 ATTTTACCCTATGGGGGTATTTCGATCATTTTATCC-TATG-GGGTTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTA-CCTTATGAGGG-TATTTTGGTT
* *
34200334 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTAGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
* * *
34200388 ATTTTACCCTATGGGGGTATTTCGGTTATTTTACCTTATGAGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
* ** *
34200442 ATTTTATCCTATATGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
34200496 ATTTTACC
1 ATTTTACC
34200504 TATTTTAGGG
Statistics
Matches: 155, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.01
54 150 0.97
55 3 0.02
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
Found at i:34200401 original size:81 final size:79
Alignment explanation
Indices: 34200277--34200503 Score: 296
Period size: 81 Copynumber: 2.8 Consensus size: 79
34200267 GGGTCTAACA
* *
34200277 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTATGGGGTTATTTTGGTTATTTTACC
1 GTCATTTTA-CCTATGAGGGTATTTCGATCATTTTACCCTATGGGG-TATTTTGGTTATTTTACC
*
34200342 CTATGGGGGTATTTCG
64 CTATGAGGGTATTTCG
* * *
34200358 GTCATTTTACCTTATGAGGGTATTT-TAGTTATTTTACCCTATGGGGGTATTTCGGTTATTTTAC
1 GTCATTTTACC-TATGAGGGTATTTCGA-TCATTTTACCCTAT-GGGGTATTTTGGTTATTTTAC
* *
34200422 CTTATGAGGGTATTTTG
63 CCTATGAGGGTATTTCG
34200439 GTCATTTTATCCTAT-ATGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTTATTTTAC
1 GTCATTTTA-CCTATGA-GGGTATTTCGATCATTTTACCCTATG-GGGTATTTTGGTTATTTTAC
34200503 C
63 C
34200504 TATTTTAGGG
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
80 5 0.04
81 116 0.91
82 7 0.05
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (79 bp):
GTCATTTTACCTATGAGGGTATTTCGATCATTTTACCCTATGGGGTATTTTGGTTATTTTACCCT
ATGAGGGTATTTCG
Found at i:34200499 original size:27 final size:27
Alignment explanation
Indices: 34200277--34200503 Score: 260
Period size: 27 Copynumber: 8.4 Consensus size: 27
34200267 GGGTCTAACA
*
34200277 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
34200304 ATCATTTTATCCTATG-GGGTTATTTTG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* *
34200331 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
34200358 GTCATTTTACCTTATGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
34200385 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
34200412 GTTATTTTACCTTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
34200439 GTCATTTTATCCTAT-ATGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
34200466 ATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
34200493 GTTATTTTACC
1 GTCATTTTACC
34200504 TATTTTAGGG
Statistics
Matches: 167, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.02
27 159 0.95
28 4 0.02
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:34215099 original size:66 final size:66
Alignment explanation
Indices: 34214991--34215186 Score: 374
Period size: 66 Copynumber: 3.0 Consensus size: 66
34214981 AACCACAGAT
* *
34214991 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACGGGTAAATGCGAATTTGGTGATATGGTCTTAA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
34215056 A
66 A
34215057 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
34215122 A
66 A
34215123 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTA
34215187 GATTTGGGGT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 128 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (66 bp):
TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
A
Found at i:34215606 original size:10 final size:9
Alignment explanation
Indices: 34215580--34215627 Score: 62
Period size: 10 Copynumber: 5.2 Consensus size: 9
34215570 AATTGAAATC
34215580 TTAAATTTT
1 TTAAATTTT
*
34215589 TTATATTTT
1 TTAAATTTT
34215598 TTAGAATTTT
1 TTA-AATTTT
34215608 TT-AATTTT
1 TTAAATTTT
34215616 TTATAATTTT
1 TTA-AATTTT
34215626 TT
1 TT
34215628 TAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 8 0.24
9 11 0.32
10 15 0.44
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTAAATTTT
Found at i:34215614 original size:18 final size:19
Alignment explanation
Indices: 34215583--34215627 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
34215573 TGAAATCTTA
34215583 AATTTTTTATATTTTTTAG
1 AATTTTTTATATTTTTTAG
*
34215602 AATTTTTTA-ATTTTTTAT
1 AATTTTTTATATTTTTTAG
34215620 AATTTTTT
1 AATTTTTT
34215628 TAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
AATTTTTTATATTTTTTAG
Found at i:34216815 original size:117 final size:117
Alignment explanation
Indices: 34216607--34216837 Score: 410
Period size: 117 Copynumber: 2.0 Consensus size: 117
34216597 ACCTTGATGC
* *
34216607 TTTGATTCTTTCATGATAGATTGATTTCGAGGCAATATGAAGAGCAACTTAATTATGGCACCAGA
1 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
34216672 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAG
66 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAG
*
34216724 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGTACCA-A
1 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
*
34216788 AGTTTTGCTAGTGATGTATGCTTCAATCCAATTTCAATTAACAGATGTTA
66 A-TTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTA
34216838 TATCCACATG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
116 2 0.02
117 107 0.98
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (117 bp):
TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAG
Found at i:34228238 original size:58 final size:58
Alignment explanation
Indices: 34228148--34228265 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
34228138 TCGTTTTGTA
*
34228148 TTTTAACAATTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
1 TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
*
34228206 TTTTAACAACTGGGATGAAAATATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
1 TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
34228264 TT
1 TT
34228266 AGGAACATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (58 bp):
TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
Found at i:34233178 original size:21 final size:21
Alignment explanation
Indices: 34233154--34233207 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
34233144 CGTGTGCATG
34233154 GGTCACACGGCCTTGCGGATA
1 GGTCACACGGCCTTGCGGATA
* *
34233175 GGTCACACAGCCTTGTGGATA
1 GGTCACACGGCCTTGCGGATA
34233196 GGTCACACGGCC
1 GGTCACACGGCC
34233208 ATGGGTGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.19
Consensus pattern (21 bp):
GGTCACACGGCCTTGCGGATA
Found at i:34234638 original size:15 final size:15
Alignment explanation
Indices: 34234620--34234660 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34234610 ATCTGAACTC
34234620 TTCTCATCTC-TTCTT
1 TTCTC-TCTCATTCTT
*
34234635 TTCTCTCTCATTTTT
1 TTCTCTCTCATTCTT
34234650 TTCTCT-TCATT
1 TTCTCTCTCATT
34234661 TCCCTTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.63
Consensus pattern (15 bp):
TTCTCTCTCATTCTT
Found at i:34241787 original size:24 final size:23
Alignment explanation
Indices: 34241757--34241816 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
34241747 AATTTTTCTC
*
34241757 TTAAATTTTAATTTTATTTAATTA
1 TTAAATTTTAA-TTTATTGAATTA
*
34241781 TTTAATTTTTCAATTTATTGAATTA
1 -TTAAATTTT-AATTTATTGAATTA
34241806 TTAATATTTTA
1 TTAA-ATTTTA
34241817 TACTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 5 0.17
25 23 0.77
26 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTAAATTTTAATTTATTGAATTA
Found at i:34247345 original size:26 final size:26
Alignment explanation
Indices: 34247316--34247442 Score: 123
Period size: 26 Copynumber: 4.9 Consensus size: 26
34247306 ATGTGACTGA
*
34247316 TAGCAGGCTTTGAGCTGGTGGTTAGT
1 TAGCAGGCTTTGAGCTGGTGATTAGT
* * **
34247342 TAGCAAGCTTTGAGCTAGTGGCT-GAT
1 TAGCAGGCTTTGAGCTGGTGATTAG-T
*
34247368 TAGTAGGCTTTGAG-TCGGTGATTAGT
1 TAGCAGGCTTTGAGCT-GGTGATTAGT
* *
34247394 TAGCAGGCTTTGAGCCGATGATTAGT
1 TAGCAGGCTTTGAGCTGGTGATTAGT
* * *
34247420 TAGTAGGCTTTGAGTTGATGATT
1 TAGCAGGCTTTGAGCTGGTGATT
34247443 TATATAACAG
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.02
26 80 0.96
27 1 0.01
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.35
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCTGGTGATTAGT
Found at i:34247423 original size:52 final size:53
Alignment explanation
Indices: 34247308--34247442 Score: 147
Period size: 52 Copynumber: 2.6 Consensus size: 53
34247298 TAGTGAGTAT
* * *
34247308 GTGACTGA-TAGCAGGCTTTGAG-CTGGTGGTTAGTTAGCAAGCTTTGAGCTA
1 GTGACTGATTAGTAGGCTTTGAGTCTGGTGATTAGTTAGCAAGCTTTGAGCGA
* *
34247359 GTGGCTGATTAGTAGGCTTTGAGTC-GGTGATTAGTTAGCAGGCTTTGAGCCGA
1 GTGACTGATTAGTAGGCTTTGAGTCTGGTGATTAGTTAGCAAGCTTTGAG-CGA
* *
34247412 -TGA-TTAGTTAGTAGGCTTTGAGT-TGATGATT
1 GTGACTGA-TTAGTAGGCTTTGAGTCTGGTGATT
34247443 TATATAACAG
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
51 9 0.13
52 59 0.83
53 3 0.04
ACGTcount: A:0.21, C:0.11, G:0.33, T:0.35
Consensus pattern (53 bp):
GTGACTGATTAGTAGGCTTTGAGTCTGGTGATTAGTTAGCAAGCTTTGAGCGA
Found at i:34248832 original size:12 final size:12
Alignment explanation
Indices: 34248815--34248844 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34248805 GGACACACGA
34248815 CCGTGTCTGTGC
1 CCGTGTCTGTGC
*
34248827 CCGTGTTTGTGC
1 CCGTGTCTGTGC
34248839 CCGTGT
1 CCGTGT
34248845 AACTCTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.37
Consensus pattern (12 bp):
CCGTGTCTGTGC
Found at i:34251727 original size:11 final size:11
Alignment explanation
Indices: 34251696--34251732 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
34251686 CATGGAAATG
*
34251696 ATTATTTATAA
1 ATTATTTATGA
34251707 ATTATTTATGA
1 ATTATTTATGA
34251718 ATTATTTATG-
1 ATTATTTATGA
34251728 ATTAT
1 ATTAT
34251733 GTTTGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
ATTATTTATGA
Found at i:34254684 original size:3 final size:3
Alignment explanation
Indices: 34254676--34254710 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34254666 GTCATCCCCA
34254676 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
34254711 CTATTTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:34261746 original size:14 final size:14
Alignment explanation
Indices: 34261729--34261760 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34261719 AAAATAGTGG
34261729 TTTCGGGACCACTA
1 TTTCGGGACCACTA
34261743 TTTCGGGACCACTA
1 TTTCGGGACCACTA
34261757 TTTC
1 TTTC
34261761 CAAGCAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (14 bp):
TTTCGGGACCACTA
Found at i:34270556 original size:24 final size:24
Alignment explanation
Indices: 34270528--34270583 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
34270518 TGGATCTCTA
34270528 GAGCTTCCC-AATATTGGCTCGCAT
1 GAGCTTCCCGAATA-TGGCTCGCAT
**
34270552 GAGCTTCCCGAATATGGCTCTTAT
1 GAGCTTCCCGAATATGGCTCGCAT
34270576 GAGCTTCC
1 GAGCTTCC
34270584 TGTTACATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (24 bp):
GAGCTTCCCGAATATGGCTCGCAT
Found at i:34270621 original size:25 final size:24
Alignment explanation
Indices: 34270502--34270622 Score: 77
Period size: 24 Copynumber: 5.0 Consensus size: 24
34270492 GGCTTTTTCA
* *
34270502 TGAGTTTCCCGATTA-ATGGATCTCT
1 TGAGCTTCCCG-TTATATGGCTC-CT
* ** *
34270527 AGAGCTTCCCAATAT-TGGCTCGCA
1 TGAGCTTCCCGTTATATGGCTC-CT
* *
34270551 TGAGCTTCCCG-AATATGGCTCTT
1 TGAGCTTCCCGTTATATGGCTCCT
* * *
34270574 ATGAGCTTCCTGTTACATAGCTCACT
1 -TGAGCTTCCCGTTATATGGCTC-CT
34270600 TGAGCTTCCCGTTATATGGCTCC
1 TGAGCTTCCCGTTATATGGCTCC
34270623 GAAGATCTTC
Statistics
Matches: 71, Mismatches: 20, Indels: 11
0.70 0.20 0.11
Matches are distributed among these distances:
23 2 0.03
24 34 0.48
25 34 0.48
26 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (24 bp):
TGAGCTTCCCGTTATATGGCTCCT
Found at i:34280031 original size:7 final size:7
Alignment explanation
Indices: 34280015--34280043 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
34280005 TTCCATTAAG
34280015 TTAA-TT
1 TTAATTT
34280021 TTAATTT
1 TTAATTT
34280028 TTAATTT
1 TTAATTT
34280035 TTAATTT
1 TTAATTT
34280042 TT
1 TT
34280044 CTTTTGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTAATTT
Found at i:34299669 original size:13 final size:13
Alignment explanation
Indices: 34299651--34299677 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34299641 GATTAAGAGG
34299651 ACAAAAATAAATA
1 ACAAAAATAAATA
34299664 ACAAAAATAAATA
1 ACAAAAATAAATA
34299677 A
1 A
34299678 ATGAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (13 bp):
ACAAAAATAAATA
Found at i:34315396 original size:45 final size:45
Alignment explanation
Indices: 34315346--34315433 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
34315336 AACAAATACT
* *
34315346 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGGC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGGC
*
34315391 CGGTGGAATCAGCACATAGCAATCACCTTACTAATCAATGATG
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATG
34315434 TTCGGTTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGGC
Found at i:34315508 original size:51 final size:50
Alignment explanation
Indices: 34315445--34315630 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
34315435 TCGGTTCACA
*
34315445 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGATACACG
* * * * * *
34315496 TAGTAGCTTGCACATAGTACTACACACGTGATCGAAACTATCTGGA-ACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCT-GATACACG
* * * * *
34315547 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGATACACG
34315596 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
34315631 CACTTTCACT
Statistics
Matches: 111, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.34
50 2 0.02
51 66 0.59
52 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGATACACG
Found at i:34315620 original size:100 final size:101
Alignment explanation
Indices: 34315443--34315626 Score: 307
Period size: 100 Copynumber: 1.8 Consensus size: 101
34315433 GTTCGGTTCA
* * *
34315443 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
34315508 CATAGTACTACACACGTGATCGAAACTATCTGGAACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGAACG
* *
34315545 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
34315609 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
34315627 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 43 0.56
102 34 0.44
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGAACG
Found at i:34316997 original size:61 final size:61
Alignment explanation
Indices: 34316930--34317059 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 61
34316920 ATTTATTTAG
* * *
34316930 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAGTATTTTATTAAATTA
1 ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
* * *
34316991 ATATTAATATGATACATTAAATTTAATTTAATATTTACCTATATAATATTTTATTAATTTA
1 ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
34317052 ATATTAAT
1 ATATTAAT
34317060 GTGATTAACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (61 bp):
ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
Found at i:34317051 original size:31 final size:30
Alignment explanation
Indices: 34316952--34317056 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 30
34316942 GATATTAAAT
* *
34316952 TTAATTTAATATTTATCTAAATAGTATTTTA
1 TTAATTTAATATTTA-CTATATAATATTTTA
* * * **
34316983 TTAAATTAATA-TTAATATGAT-ACATTAAA
1 TTAATTTAATATTTACTAT-ATAATATTTTA
34317012 TTTAATTTAATATTTACCTATATAATATTTTA
1 -TTAATTTAATATTTA-CTATATAATATTTTA
34317044 TTAATTTAATATT
1 TTAATTTAATATT
34317057 AATGTGATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
29 6 0.11
30 15 0.26
31 28 0.49
32 8 0.14
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTTACTATATAATATTTTA
Found at i:34320614 original size:21 final size:21
Alignment explanation
Indices: 34320575--34320615 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34320565 TTTTTTAGGA
34320575 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAATATTTAT
*
34320596 TTTTATATCATAAAA-ATTTA
1 TTTTAAAT-ATAAAATATTTA
34320616 AATTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAATATAAAATATTTAT
Found at i:34322837 original size:14 final size:14
Alignment explanation
Indices: 34322820--34322846 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34322810 ATCATTAGCC
34322820 TTATATTATTATTG
1 TTATATTATTATTG
34322834 TTATATTATTATT
1 TTATATTATTATT
34322847 ATTTTTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTG
Found at i:34322949 original size:24 final size:23
Alignment explanation
Indices: 34322918--34322962 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34322908 TATACATACC
* *
34322918 TTATTATATATCTTTATATCTTA
1 TTATTATATATATCTATATCTTA
34322941 TTATGTATATATATCTATATCT
1 TTAT-TATATATATCTATATCT
34322963 CTTCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATATATATCTATATCTTA
Found at i:34323249 original size:18 final size:18
Alignment explanation
Indices: 34323202--34323245 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
34323192 CTTAAAGTGC
* *
34323202 TTTAATTTTATTTGTTTA
1 TTTACTTTTATTTGTTGA
34323220 TTTACTTTTATTTGTTGA
1 TTTACTTTTATTTGTTGA
34323238 TTT-CTTTT
1 TTTACTTTT
34323246 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTACTTTTATTTGTTGA
Found at i:34327801 original size:24 final size:24
Alignment explanation
Indices: 34327770--34327819 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
34327760 TCCATCTACT
34327770 AAAAAATGAAAAAACAAAAAAACA
1 AAAAAATGAAAAAACAAAAAAACA
*
34327794 AAAAAATGAAAAAAGAAAAAAACA
1 AAAAAATGAAAAAACAAAAAAACA
34327818 AA
1 AA
34327820 TTAACCCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.04
Consensus pattern (24 bp):
AAAAAATGAAAAAACAAAAAAACA
Found at i:34327815 original size:8 final size:8
Alignment explanation
Indices: 34327778--34327819 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
34327768 CTAAAAAATG
34327778 AAAAAACA
1 AAAAAACA
34327786 AAAAAACA
1 AAAAAACA
**
34327794 AAAAAATG
1 AAAAAACA
*
34327802 AAAAAAGA
1 AAAAAACA
34327810 AAAAAACA
1 AAAAAACA
34327818 AA
1 AA
34327820 TTAACCCATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (8 bp):
AAAAAACA
Found at i:34328493 original size:3 final size:3
Alignment explanation
Indices: 34328485--34328510 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34328475 CAACTAAATC
34328485 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
34328511 GTCTGATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:34328915 original size:30 final size:31
Alignment explanation
Indices: 34328858--34328923 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
34328848 CGAAACAAAG
*
34328858 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
1 AAAAAACACGTTGAGAGAC-A--AACTCTAATCT
34328892 AAAAAACACGTTGAGAGAC-AACTCTAATCT
1 AAAAAACACGTTGAGAGACAAACTCTAATCT
34328922 AA
1 AA
34328924 GAGTCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 13 0.42
34 18 0.58
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (31 bp):
AAAAAACACGTTGAGAGACAAACTCTAATCT
Found at i:34334718 original size:23 final size:21
Alignment explanation
Indices: 34334609--34334718 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 21
34334599 CCTGATTAGT
34334609 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* * ** *
34334629 AAATGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
34334650 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
34334673 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
34334694 ATGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
34334717 AT
1 AT
34334719 CAGTAAAGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.11
21 26 0.34
23 42 0.55
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:34335046 original size:16 final size:17
Alignment explanation
Indices: 34335025--34335056 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34335015 TAATAATAAT
34335025 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
34335041 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
34335057 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:34335298 original size:8 final size:8
Alignment explanation
Indices: 34335285--34335328 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
34335275 TGGTCTCTGT
34335285 TTCTTTTC
1 TTCTTTTC
*
34335293 TTCTTTTGT
1 TTCTTTT-C
34335302 TTCTTTTC
1 TTCTTTTC
*
34335310 TTCTTTTGT
1 TTCTTTT-C
34335319 TTCTTTTC
1 TTCTTTTC
34335327 TT
1 TT
34335329 TTATGTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 16 0.53
9 14 0.47
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:34335304 original size:17 final size:17
Alignment explanation
Indices: 34335282--34335328 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
34335272 GAATGGTCTC
34335282 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTCTTCTTT
34335299 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTCTTCTTT
34335316 TGTTTCTTTTCTT
1 TGTTTCTTTTCTT
34335329 TTATGTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTCTTCTTT
Found at i:34335307 original size:9 final size:9
Alignment explanation
Indices: 34335282--34335325 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
34335272 GAATGGTCTC
34335282 TGTTTCTTT
1 TGTTTCTTT
*
34335291 T-CTTCTTT
1 TGTTTCTTT
34335299 TGTTTCTTT
1 TGTTTCTTT
*
34335308 T-CTTCTTT
1 TGTTTCTTT
34335316 TGTTTCTTT
1 TGTTTCTTT
34335325 T
1 T
34335326 CTTTTATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (9 bp):
TGTTTCTTT
Found at i:34335349 original size:3 final size:3
Alignment explanation
Indices: 34335341--34335378 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
34335331 ATGTATTAGT
*
34335341 TAA TAA TAA TAA CAA TATA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
34335379 TTTAATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34335547 original size:30 final size:27
Alignment explanation
Indices: 34335511--34335575 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
34335501 TTTCCTATAA
*
34335511 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
34335541 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
34335568 TATAATAT
1 TATAATAT
34335576 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:34335577 original size:16 final size:17
Alignment explanation
Indices: 34335541--34335577 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
34335531 TAATATAATT
34335541 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
34335558 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
34335573 TATAA
1 TATAA
34335578 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:34336294 original size:43 final size:44
Alignment explanation
Indices: 34336211--34336300 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 44
34336201 AACTTTGTTT
* * * *
34336211 TTAGTTTACCACTTAAACTCTGATTAGTTTAGATTCTTTTAA-A
1 TTAGTTTACCACTTAAAATCTGATTAATGTAGATTATTTTAATA
* * *
34336254 TTAGTTTCCCACTTAAAATCTTATTAATGTAGTTTATTTTAATA
1 TTAGTTTACCACTTAAAATCTGATTAATGTAGATTATTTTAATA
34336298 TTA
1 TTA
34336301 TTTGACCTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (44 bp):
TTAGTTTACCACTTAAAATCTGATTAATGTAGATTATTTTAATA
Found at i:34344994 original size:19 final size:19
Alignment explanation
Indices: 34344966--34345003 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34344956 CCACTGTCAC
34344966 CCACCATAATCAATTTTGT
1 CCACCATAATCAATTTTGT
*
34344985 CCACCGTAATCAATTTTGT
1 CCACCATAATCAATTTTGT
34345004 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (19 bp):
CCACCATAATCAATTTTGT
Found at i:34345299 original size:17 final size:17
Alignment explanation
Indices: 34345279--34345337 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
34345269 TCAGCATGAT
*
34345279 TAAACAATTCAATAATA
1 TAAATAATTCAATAATA
* *
34345296 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
34345312 TGAAATTTAATTCAATAATA
1 T-AAA--TAATTCAATAATA
34345332 TAAATA
1 TAAATA
34345338 GTAGACATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
19 9 0.27
20 5 0.15
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:34345442 original size:25 final size:25
Alignment explanation
Indices: 34345413--34345466 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
34345403 AAAAGGGAAA
* *
34345413 AAAAATTTGAGGGGTTTGGCGGAAGT
1 AAAAGTTTG-GGGGTTTGGAGGAAGT
34345439 AAAAGTTTTGGGGGTTTGGAGGAAGT
1 AAAAG-TTTGGGGGTTTGGAGGAAGT
34345465 AA
1 AA
34345467 TTTTTTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.39, T:0.28
Consensus pattern (25 bp):
AAAAGTTTGGGGGTTTGGAGGAAGT
Found at i:34345710 original size:14 final size:14
Alignment explanation
Indices: 34345688--34345718 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34345678 ATTTGTATAG
*
34345688 AAAATTTTATATTA
1 AAAAATTTATATTA
34345702 AAAAATTTATATTA
1 AAAAATTTATATTA
34345716 AAA
1 AAA
34345719 GTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATTTATATTA
Found at i:34347378 original size:16 final size:16
Alignment explanation
Indices: 34347357--34347388 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34347347 TCTTGCATTT
34347357 TCTTGAAATCTCTCAA
1 TCTTGAAATCTCTCAA
34347373 TCTTGAAATCTCTCAA
1 TCTTGAAATCTCTCAA
34347389 AAATCAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
TCTTGAAATCTCTCAA
Found at i:34353195 original size:31 final size:32
Alignment explanation
Indices: 34353136--34353200 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
34353126 GGCAAATTAC
34353136 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
34353168 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
34353199 AA
1 AA
34353201 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:34358754 original size:14 final size:14
Alignment explanation
Indices: 34358737--34358770 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34358727 TTTTTTTACA
34358737 CTTTTTTGCTTCTT
1 CTTTTTTGCTTCTT
* *
34358751 CTTTTTTTCTTTTT
1 CTTTTTTGCTTCTT
34358765 CTTTTT
1 CTTTTT
34358771 CTTTTTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
CTTTTTTGCTTCTT
Found at i:34360877 original size:78 final size:76
Alignment explanation
Indices: 34360748--34360891 Score: 252
Period size: 78 Copynumber: 1.9 Consensus size: 76
34360738 AAACTGTAGG
34360748 TTGAGAACGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAGAATGTATTTTGGTATGTTT
1 TTGAGAACGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAGAATGTATTTTGGTATGTTT
34360813 TTTGTGCAAGT
66 TTTGTGCAAGT
* *
34360824 TTGAGAACGTGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTGGTATGTATTTTGGTATGT
1 TTGAGAAC--GTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAGAATGTATTTTGGTATGT
34360889 TTT
64 TTT
34360892 CGTCTAGGTT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
76 8 0.12
78 56 0.88
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (76 bp):
TTGAGAACGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAGAATGTATTTTGGTATGTTT
TTTGTGCAAGT
Found at i:34361341 original size:15 final size:15
Alignment explanation
Indices: 34361321--34361350 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34361311 TTCACTATTA
*
34361321 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
34361336 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
34361351 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:34362455 original size:13 final size:13
Alignment explanation
Indices: 34362435--34362467 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
34362425 GTTCAACTAG
34362435 AGAATTTGATTAA
1 AGAATTTGATTAA
*
34362448 ATAATTTGATTAA
1 AGAATTTGATTAA
34362461 AGAATTT
1 AGAATTT
34362468 TCTTGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (13 bp):
AGAATTTGATTAA
Found at i:34369593 original size:80 final size:80
Alignment explanation
Indices: 34369507--34369715 Score: 287
Period size: 80 Copynumber: 2.6 Consensus size: 80
34369497 TCTGTCTGCT
* * *
34369507 TGTTTCGGTTGTATTAGCTCTTATGAGCTTCTGTCTGGCT-TGTTTCGATTAGATTAGCTCTTAT
1 TGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGG-TGTGTTTCAATTAGATTAGCTCTTAT
* * *
34369571 GAGCTTCTGTCTATCA
65 GAGCGTCTGGCTAGCA
* *
34369587 TGTTTCGGTTGGATTAACTCTTATGAGATTCGGTCTGGTGTGTTTCAATTAGATTAGCTCTTATG
1 TGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGGTGTGTTTCAATTAGATTAGCTCTTATG
* *
34369652 AGCGTCTGGCTGGCG
66 AGCGTCTGGCTAGCA
* *
34369667 TGTTTCGGTTGGATTAACTCGTATGAGCTTTTGTCTGGTGTG-TTCAATT
1 TGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGGTGTGTTTCAATT
34369716 GATCTAATGA
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 8 0.07
80 106 0.93
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.44
Consensus pattern (80 bp):
TGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGGTGTGTTTCAATTAGATTAGCTCTTATG
AGCGTCTGGCTAGCA
Found at i:34369710 original size:40 final size:40
Alignment explanation
Indices: 34369497--34369710 Score: 227
Period size: 40 Copynumber: 5.4 Consensus size: 40
34369487 TGTTATACTC
* *
34369497 TCTGTCTGCT-TGTTTCGGTTGTATTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
34369536 TCTGTCTGGCT-TGTTTCGATTAGATTAGCTCTTATGAGCT
1 TCTGTCTGG-TGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * * *
34369576 TCTGTCT-ATCATGTTTCGGTTGGATTAACTCTTATGAGAT
1 TCTGTCTGGT-GTGTTTCGGTTGGATTAGCTCTTATGAGCT
* ** * *
34369616 TCGGTCTGGTGTGTTTCAATTAGATTAGCTCTTATGAGCG
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * * *
34369656 TCTGGCTGGCGTGTTTCGGTTGGATTAACTCGTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
*
34369696 TTTGTCTGGTGTGTT
1 TCTGTCTGGTGTGTT
34369711 CAATTGATCT
Statistics
Matches: 141, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
38 1 0.01
39 8 0.06
40 131 0.93
41 1 0.01
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:34377036 original size:21 final size:21
Alignment explanation
Indices: 34377007--34377046 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34376997 CCCTAACATG
34377007 TAATATGGACTTTAAAAAAGT
1 TAATATGGACTTTAAAAAAGT
* * *
34377028 TAATTTGGAGTTTTAAAAA
1 TAATATGGACTTTAAAAAA
34377047 CAAATTAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (21 bp):
TAATATGGACTTTAAAAAAGT
Found at i:34378681 original size:21 final size:21
Alignment explanation
Indices: 34378633--34378682 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
34378623 CATATTTTCT
**
34378633 TGTTGCCTCTGTTGCCCTTGC
1 TGTTGCCTCTGTTGCCCTCAC
*
34378654 TGCTGCCTCTGCTT-CCCTCAC
1 TGTTGCCTCTG-TTGCCCTCAC
34378675 TGTTGCCT
1 TGTTGCCT
34378683 TCGCTTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.02, C:0.38, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTTGCCTCTGTTGCCCTCAC
Found at i:34386342 original size:16 final size:16
Alignment explanation
Indices: 34386305--34386344 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34386295 TTAATAAAAT
* *
34386305 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
34386321 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
34386337 TAAAATTA
1 TAAAATTA
34386345 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:34386423 original size:59 final size:61
Alignment explanation
Indices: 34386354--34386533 Score: 265
Period size: 68 Copynumber: 2.9 Consensus size: 61
34386344 ATCAAATTAT
*
34386354 TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC--A--A
34386419 TTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC-A
1 -TAA-T-TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAA
*
34386482 -AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
34386534 ATAAACTTGA
Statistics
Matches: 110, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
59 48 0.44
60 1 0.01
61 2 0.02
63 1 0.01
66 3 0.03
67 1 0.01
68 54 0.49
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (61 bp):
TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAA
Found at i:34386450 original size:9 final size:9
Alignment explanation
Indices: 34386417--34386444 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
34386407 TTTATCAAAT
34386417 TATTAATTG
1 TATTAATTG
34386426 TATTAATTG
1 TATTAATTG
34386435 TATTAATTG
1 TATTAATTG
34386444 T
1 T
34386445 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:34386454 original size:68 final size:68
Alignment explanation
Indices: 34386333--34386503 Score: 319
Period size: 68 Copynumber: 2.5 Consensus size: 68
34386323 AAATTAATTG
*
34386333 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
34386396 TGA
66 TGA
34386399 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
34386464 TGA
66 TGA
34386467 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
34386504 TGTAACAAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 26 0.25
68 76 0.75
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:34386569 original size:59 final size:59
Alignment explanation
Indices: 34386426--34386538 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
34386416 TTATTAATTG
* **
34386426 TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAAT
1 TATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATAAATCAAAT
34386485 TATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATAAA
1 TATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGT-AAATAAA
34386539 CTTGATATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
59 45 0.90
60 5 0.10
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (59 bp):
TATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATAAATCAAAT
Found at i:34386640 original size:22 final size:24
Alignment explanation
Indices: 34386600--34386643 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34386590 AAATAAACTT
34386600 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
34386624 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
34386644 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:34387123 original size:9 final size:10
Alignment explanation
Indices: 34387100--34387124 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34387090 CCGTAATTAT
34387100 TTTTTAACAA
1 TTTTTAACAA
34387110 TTTTTAACAA
1 TTTTTAACAA
34387120 TTTTT
1 TTTTT
34387125 CAAAGTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTAACAA
Found at i:34387556 original size:23 final size:23
Alignment explanation
Indices: 34387530--34387647 Score: 87
Period size: 23 Copynumber: 5.1 Consensus size: 23
34387520 ATAAGTGCCA
*
34387530 CACTGATATATAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
* * * *
34387553 CACTGATACGTAGCCGTAGCTAT
1 CACTGATATGTAGCTGAAGCTAC
* *
34387576 CACTGAAATGTAG-TCGAAGTTAC
1 CACTGATATGTAGCT-GAAGCTAC
* *
34387599 CACTGATATGTAG-TCGTAGTTAC
1 CACTGATATGTAGCT-GAAGCTAC
* * **
34387622 CACTAAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
34387645 CAC
1 CAC
34387648 AGATCAATAA
Statistics
Matches: 74, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:34387580 original size:46 final size:46
Alignment explanation
Indices: 34387530--34387647 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 46
34387520 ATAAGTGCCA
*
34387530 CACTGATATATAG-CTGAAGCTACCACTGATACGTAGCCGTAGCTAT
1 CACTGAAATATAGTC-GAAGCTACCACTGATACGTAGCCGTAGCTAT
* * * * * *
34387576 CACTGAAATGTAGTCGAAGTTACCACTGATATGTAGTCGTAGTTAC
1 CACTGAAATATAGTCGAAGCTACCACTGATACGTAGCCGTAGCTAT
* * * *
34387622 CACTAAAATGTAGCCAAAGCTACCAC
1 CACTGAAATATAGTCGAAGCTACCAC
34387648 AGATCAATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 59 0.98
47 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (46 bp):
CACTGAAATATAGTCGAAGCTACCACTGATACGTAGCCGTAGCTAT
Found at i:34394048 original size:23 final size:24
Alignment explanation
Indices: 34394001--34394046 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
34393991 TTATGTGAAA
*
34394001 ATATACTTATTCAGCTTTAATTTC
1 ATATACTTATTCAGCTCTAATTTC
34394025 ATATA-TTATTCAGCCTCTAATT
1 ATATACTTATTCAG-CTCTAATT
34394047 CAATCTCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATACTTATTCAGCTCTAATTTC
Found at i:34394439 original size:51 final size:50
Alignment explanation
Indices: 34394381--34394567 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
34394371 TCAGTTCACA
* **
34394381 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATTC-GGTACACG
* * * * *
34394432 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATTCGGTACACG
* * *
34394483 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TTCGGTACACG
34394533 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
34394568 CACTTTCACT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.36
51 67 0.59
52 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATTCGGTACACG
Found at i:34394556 original size:101 final size:101
Alignment explanation
Indices: 34394379--34394563 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
34394369 GTTCAGTTCA
*
34394379 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCTAATACACGTAGTAGCCTGCA
34394444 CATAGTACTACACACGTGATCGAAACTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATTCGGTACG
* * **
34394481 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCT-AATACACGTAGTAGCCTGCA
34394545 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
34394564 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 37 0.48
102 34 0.44
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCTAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATTCGGTACG
Found at i:34396108 original size:32 final size:32
Alignment explanation
Indices: 34396072--34396132 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
34396062 AGAAAATTAA
34396072 AAAATTTCTAAAATTTTAACACGATTGAAGCT
1 AAAATTTCTAAAATTTTAACACGATTGAAGCT
34396104 AAAATTTCTAAAATTTTAACACGATTGAA
1 AAAATTTCTAAAATTTTAACACGATTGAA
34396133 AATTAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (32 bp):
AAAATTTCTAAAATTTTAACACGATTGAAGCT
Found at i:34396701 original size:41 final size:41
Alignment explanation
Indices: 34396639--34396734 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
34396629 ATTCGCGGCA
* * *
34396639 TTTATGGGAAAAACGTTGCTATTGCTTTACCTTTTGTGGCG
1 TTTATGGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
*
34396680 TTTATAGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
1 TTTATGGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
34396721 TTTATGGGAAAAAC
1 TTTATGGGAAAAAC
34396735 GCCACTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTATGGGAAAAACATCGCTATTGCTTTACCTTTTGTGACG
Found at i:34399283 original size:116 final size:116
Alignment explanation
Indices: 34399079--34399313 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
34399069 CTAGTTTGCC
34399079 TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
1 TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
34399144 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
66 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
*
34399195 TTGGATTACTAGGAACCTATACAAAATGAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
1 TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
34399260 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
66 AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
34399311 TTG
1 TTG
34399314 AAAGGCTGGT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (116 bp):
TTGGATTACTAGGAACCTATACAAAATAAAGTAAAATAGTAGATTGAATCACTAATCTACTCATT
AAGATGCTTGCTAAAAGGAGGATAAATAAATACCATGGGCAACGATGATGG
Found at i:34399708 original size:88 final size:88
Alignment explanation
Indices: 34399559--34399735 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
34399549 GCGATAGCAA
34399559 CATACAATGGCTTGTTGTGAAACATGTAGCCTGTAAAAAAAAATGCAACAATGAGATCATCGACA
1 CATACAATGGCTTGTTGTGAAACATGTAGCCTGTAAAAAAAAATGCAACAATGAGATCATCGACA
34399624 ACTTTGACAAGAATACCTAATAC
66 ACTTTGACAAGAATACCTAATAC
34399647 CATACAATGGCTTGTTGTGAAACATGTAGCCTGTAAAAAAAAATGCAACAATGAGATCATCGACA
1 CATACAATGGCTTGTTGTGAAACATGTAGCCTGTAAAAAAAAATGCAACAATGAGATCATCGACA
34399712 ACTTTGACAAGAATACCTAATAC
66 ACTTTGACAAGAATACCTAATAC
34399735 C
1 C
34399736 TACTTTCAAC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (88 bp):
CATACAATGGCTTGTTGTGAAACATGTAGCCTGTAAAAAAAAATGCAACAATGAGATCATCGACA
ACTTTGACAAGAATACCTAATAC
Found at i:34400564 original size:47 final size:47
Alignment explanation
Indices: 34400497--34400590 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
34400487 CCGATCACTC
34400497 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
1 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
*
34400544 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAATAAAATT
1 TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
34400591 ATAATTTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.31
Consensus pattern (47 bp):
TTTTTCATAAATTTCCCAACATATCTGAGCCAAAGAAGAACAAAATT
Found at i:34402130 original size:22 final size:22
Alignment explanation
Indices: 34402095--34402136 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34402085 CTTCATACAT
*
34402095 TATTTTTAAAAATTTTAAAATG
1 TATTTTTAAAAATTTAAAAATG
**
34402117 TATTTTTATTAATTTAAAAA
1 TATTTTTAAAAATTTAAAAA
34402137 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTTAAAAATTTAAAAATG
Found at i:34402415 original size:7 final size:7
Alignment explanation
Indices: 34402405--34402433 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
34402395 TAAAAGACTG
34402405 CTTCAAA
1 CTTCAAA
34402412 CTTCAAA
1 CTTCAAA
34402419 CTTCAAA
1 CTTCAAA
34402426 CTTCAAA
1 CTTCAAA
34402433 C
1 C
34402434 AAACTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (7 bp):
CTTCAAA
Found at i:34402565 original size:14 final size:14
Alignment explanation
Indices: 34402516--34402580 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
34402506 ATAGTTGTTC
*
34402516 TATTTTATCTATTT
1 TATTTTTTCTATTT
* * *
34402530 TATATTTTTGTAATA
1 TAT-TTTTTCTATTT
*
34402545 TAATTTTTCTATTT
1 TATTTTTTCTATTT
*
34402559 TATTTTTAT-TTTTT
1 TATTTTT-TCTATTT
34402573 TATTTTTT
1 TATTTTTT
34402581 TAATTTAGTT
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 1 0.03
14 28 0.72
15 10 0.26
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (14 bp):
TATTTTTTCTATTT
Found at i:34408414 original size:24 final size:24
Alignment explanation
Indices: 34408387--34408442 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
34408377 AATTTAATAA
*
34408387 AATAAAAATTGTTTTTA-ATATTTT
1 AATAAAAATTATTTTTATAT-TTTT
*
34408411 AATAGTAAATTATTTTTATATTTTT
1 AATA-AAAATTATTTTTATATTTTT
34408436 AATAAAA
1 AATAAAA
34408443 TAGAAGTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
AATAAAAATTATTTTTATATTTTT
Found at i:34408426 original size:25 final size:25
Alignment explanation
Indices: 34408392--34408439 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
34408382 AATAAAATAA
*
34408392 AAATTGTTTTTA-ATATTTTAATAGT
1 AAATTATTTTTATAT-TTTTAATAGT
34408417 AAATTATTTTTATATTTTTAATA
1 AAATTATTTTTATATTTTTAATA
34408440 AAATAGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
AAATTATTTTTATATTTTTAATAGT
Found at i:34410485 original size:5 final size:5
Alignment explanation
Indices: 34410466--34410503 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
34410456 TAAAATAAGG
34410466 AAATA CAAA-A AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA -AAATA AAATA AAATA AAATA AAATA AAATA AAA
34410504 ATATATTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.10
5 25 0.81
6 3 0.10
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:34411425 original size:13 final size:13
Alignment explanation
Indices: 34411407--34411449 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
34411397 TAGATTTTTC
34411407 CTAAATATTATCA
1 CTAAATATTATCA
*
34411420 CT-AA-ATGATC-
1 CTAAATATTATCA
34411430 CTAAATATTATCA
1 CTAAATATTATCA
34411443 CTAAATA
1 CTAAATA
34411450 ATTGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 2 0.08
11 7 0.28
12 7 0.28
13 9 0.36
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:34411475 original size:23 final size:23
Alignment explanation
Indices: 34411407--34411481 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
34411397 TAGATTTTTC
* *
34411407 CTAAATATTATCACTAAATGATC
1 CTAAATATTATCACTAAATAATT
34411430 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
* *
34411453 GTAAATATTATCATTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
34411476 CAAAAT
1 CTAAAT
34411482 TTAAAAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:34411503 original size:18 final size:18
Alignment explanation
Indices: 34411482--34411522 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
34411472 AATTCAAAAT
34411482 TTAAAAATCAAATTTAAA
1 TTAAAAATCAAATTTAAA
* *
34411500 TTAAAGATTAAATTTAAA
1 TTAAAAATCAAATTTAAA
*
34411518 CTAAA
1 TTAAA
34411523 TAAATAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (18 bp):
TTAAAAATCAAATTTAAA
Found at i:34412079 original size:6 final size:6
Alignment explanation
Indices: 34412070--34412105 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
34412060 ATCTATATAC
34412070 ATTTTT ATTTTT -TGTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT
34412106 TTCAAACGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.04
6 26 0.93
7 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:34416556 original size:24 final size:24
Alignment explanation
Indices: 34416520--34416565 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34416510 GGTGAAACAA
* * *
34416520 ATTATGCTTATAAATGCTAAATAT
1 ATTATACTAATAAATACTAAATAT
34416544 ATTATACTAATAAATACTAAAT
1 ATTATACTAATAAATACTAAAT
34416566 CTTCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:34416854 original size:32 final size:32
Alignment explanation
Indices: 34416818--34416880 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
34416808 AGAGATTTAG
*
34416818 TACAAATCCTTGAAGAAATTAAGATTGATTAA
1 TACAAACCCTTGAAGAAATTAAGATTGATTAA
* *
34416850 TACAAACCCTTGAATAAATTAGGATTGATTA
1 TACAAACCCTTGAAGAAATTAAGATTGATTA
34416881 GAAATTTAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (32 bp):
TACAAACCCTTGAAGAAATTAAGATTGATTAA
Found at i:34418672 original size:48 final size:46
Alignment explanation
Indices: 34418543--34418699 Score: 167
Period size: 48 Copynumber: 3.4 Consensus size: 46
34418533 CTATCACCCA
* * * * *
34418543 CCAAACACAACCAATCATA-GCCTCCAAACACAACC-AATTTACCCT
1 CCAAACACAACCAAT-ATATACCTTCGAACACAACCAAATATACCTT
* * *
34418588 CCAAACATAACC-ATATGTATCCTTCGAACATAACCAAATATACCTT
1 CCAAACACAACCAATATATA-CCTTCGAACACAACCAAATATACCTT
*
34418634 CCAAACACAACCATATATATAACCTTCGAACACAACCAAGTATACCTT
1 CCAAACACAACCA-ATATAT-ACCTTCGAACACAACCAAATATACCTT
*
34418682 CCAACCACAACCAATATA
1 CCAAACACAACCAATATA
34418700 CCCTTCAACA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 23 0.25
46 19 0.20
47 5 0.05
48 41 0.44
49 1 0.01
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (46 bp):
CCAAACACAACCAATATATACCTTCGAACACAACCAAATATACCTT
Found at i:34418705 original size:23 final size:22
Alignment explanation
Indices: 34418543--34418701 Score: 135
Period size: 23 Copynumber: 6.9 Consensus size: 22
34418533 CTATCACCCA
34418543 CCAAACACAACCAATCATAGCC-T
1 CCAAACACAACCAAT-ATA-CCTT
* *
34418566 CCAAACACAACCAATTTACCCT
1 CCAAACACAACCAATATACCTT
* *
34418588 CCAAACATAACCATATGTATCCTT
1 CCAAACACAACCA-ATATA-CCTT
* *
34418612 -CGAACATAACCAAATATACCTT
1 CCAAACACAACC-AATATACCTT
34418634 CCAAACACAACCATATATATAACCTT
1 CCAAACACAACC--A-ATAT-ACCTT
*
34418660 -CGAACACAACCAAGTATACCTT
1 CCAAACACAACCAA-TATACCTT
*
34418682 CCAACCACAACCAATATACC
1 CCAAACACAACCAATATACC
34418702 CTTCAACATA
Statistics
Matches: 114, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.02
22 31 0.27
23 57 0.50
24 5 0.04
25 14 0.12
26 5 0.04
ACGTcount: A:0.43, C:0.35, G:0.03, T:0.19
Consensus pattern (22 bp):
CCAAACACAACCAATATACCTT
Found at i:34427400 original size:25 final size:26
Alignment explanation
Indices: 34427378--34427428 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
34427368 ACCAAAAATT
34427378 TATTTTAAAAAT-AAAAAATAAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAA
34427403 TATTTTAAAAATAAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAA
34427429 ATAAATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (26 bp):
TATTTTAAAAATAAAAAAATAAAAAA
Found at i:34427401 original size:8 final size:8
Alignment explanation
Indices: 34427384--34427433 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
34427374 AATTTATTTT
34427384 AAAAAT-A
1 AAAAATAA
34427391 AAAAATAA
1 AAAAATAA
**
34427399 AAAATATTTT
1 AAAA-A-TAA
34427409 AAAAATAA
1 AAAAATAA
34427417 AAAAATAA
1 AAAAATAA
34427425 AAAAATAA
1 AAAAATAA
34427433 A
1 A
34427434 TTTATTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 6 0.17
8 23 0.64
9 2 0.06
10 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAATAA
Found at i:34430632 original size:35 final size:36
Alignment explanation
Indices: 34430542--34430634 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
34430532 CCAACAACAG
* *
34430542 GTATTATCCTAATATTGTATTTGCTATGTACAAGGT
1 GTATTATCCTAATATTGTATTTGCCATCTACAAGGT
* *
34430578 GTATTATCCTAATATTGTATTTGCCGTCTACAAGTT
1 GTATTATCCTAATATTGTATTTGCCATCTACAAGGT
*
34430614 GTATTGT-CTAATATTGTATTT
1 GTATTATCCTAATATTGTATTT
34430635 TTCTGCAGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
35 14 0.27
36 38 0.73
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (36 bp):
GTATTATCCTAATATTGTATTTGCCATCTACAAGGT
Found at i:34432036 original size:13 final size:13
Alignment explanation
Indices: 34432014--34432052 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
34432004 GGCTTGACTC
34432014 ATATTAAATATAT
1 ATATTAAATATAT
*
34432027 ATATTTAATATAT
1 ATATTAAATATAT
* *
34432040 ATAATATATATAT
1 ATATTAAATATAT
34432053 TTGATTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:34432135 original size:103 final size:104
Alignment explanation
Indices: 34431953--34432143 Score: 348
Period size: 103 Copynumber: 1.8 Consensus size: 104
34431943 AAATATGGGC
* *
34431953 TTAAAAAATTTTTCAAGCTTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCTTGACTCATAT
1 TTAAAAAATTTTTCAAGCCTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGACTCATAT
34432018 TAAATATATATATTTAATATATATAATATATATATTTGA
66 TAAATATATATATTTAATATATATAATATATATATTTGA
*
34432057 TTAAAAAA-TTTTCAAGCCTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGATTCATAT
1 TTAAAAAATTTTTCAAGCCTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGACTCATAT
34432121 TAAATATATATATTTAATATATA
66 TAAATATATATATTTAATATATA
34432144 ATTCGGGCCG
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
103 76 0.90
104 8 0.10
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (104 bp):
TTAAAAAATTTTTCAAGCCTGGCATGAAAGAAAATTGTTAAGTTCGAGTTCGGCCTGACTCATAT
TAAATATATATATTTAATATATATAATATATATATTTGA
Found at i:34433146 original size:21 final size:22
Alignment explanation
Indices: 34433122--34433167 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
34433112 TCCCTTTCTC
34433122 CTTTCTCTTCTAAGC-AATCTT
1 CTTTCTCTTCTAAGCAAATCTT
34433143 CTTTCTCTTCTAAGCAAATCTT
1 CTTTCTCTTCTAAGCAAATCTT
34433165 CTT
1 CTT
34433168 CCACATCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (22 bp):
CTTTCTCTTCTAAGCAAATCTT
Found at i:34435429 original size:18 final size:18
Alignment explanation
Indices: 34435406--34435441 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34435396 CAATTAAACC
34435406 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
34435424 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
34435442 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:34435521 original size:20 final size:20
Alignment explanation
Indices: 34435457--34435533 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
34435447 AAATCATTGC
34435457 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* * *
34435477 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-TAATTT
*
34435496 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAATAATTT
34435517 AATATATGTAAAAATAA
1 AATATATGTAAAAATAA
34435534 CTTTTCCGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.18
19 6 0.13
20 18 0.40
21 5 0.11
22 8 0.18
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:34435626 original size:14 final size:15
Alignment explanation
Indices: 34435604--34435680 Score: 70
Period size: 14 Copynumber: 5.0 Consensus size: 15
34435594 CAATCAAACA
34435604 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
34435618 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
34435633 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
34435653 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
34435667 CCAGAAAA-CATTTT
1 CCAGAAAATCATTTT
34435681 ACAGCCAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 24 0.46
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.17
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:34435645 original size:20 final size:20
Alignment explanation
Indices: 34435620--34435659 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34435610 AATATTTTCC
*
34435620 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
34435640 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
34435660 TCATTTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:34435665 original size:34 final size:35
Alignment explanation
Indices: 34435608--34435674 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
34435598 CAAACACCAG
*
34435608 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
34435643 AAAACATTTTCCAG-AAATCATTTTCCAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
34435675 CATTTTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Done.