Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 138 of 189
Found at i:41891012 original size:81 final size:79
Alignment explanation
Indices: 41890871--41891097 Score: 249
Period size: 81 Copynumber: 2.8 Consensus size: 79
41890861 ACGATTCATG
* * *
41890871 GGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGACAGAAATACCCTCGAAGGATAAAATGAC
1 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACAAAAATACCCCCGAAGG-TAAAATGAC
*
41890936 CGGAATACCCCT-GTAA
65 CGAAATA-CCCTAG-AA
* * ** *
41890952 GGTAAAATGACCGTAATACCCTCGAAGGGTAAAATGACTTAAATACCCCCGACAGGTAAAATAAC
1 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACAAAAATACCCCCGA-AGGTAAAATGAC
* *
41891017 TGAAATACCCTAGAG
65 CGAAATACCCTAGAA
* * * * *
41891032 GGTAAAATAACCGAAATATCCTCAAAGGGTAAAATGACCAAAATATCCCCTATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACAAAAATACCCCCGA-A-GGTAAAATGA
41891097 C
64 C
41891098 TGTTATACCC
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 50 0.41
81 70 0.57
82 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (79 bp):
GGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACAAAAATACCCCCGAAGGTAAAATGACC
GAAATACCCTAGAA
Found at i:41891289 original size:26 final size:26
Alignment explanation
Indices: 41891255--41891305 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
41891245 GCCACATATA
41891255 CTGTTACTGGCAGCTTCGCTGCGATT
1 CTGTTACTGGCAGCTTCGCTGCGATT
* *
41891281 CTGTTACTGGCAGCTTTGTTGCGAT
1 CTGTTACTGGCAGCTTCGCTGCGAT
41891306 ATTGGTGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.27, T:0.37
Consensus pattern (26 bp):
CTGTTACTGGCAGCTTCGCTGCGATT
Found at i:41896557 original size:19 final size:19
Alignment explanation
Indices: 41896533--41896571 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
41896523 GTTATGTGTC
41896533 CAGCCCATGTGGAATGGCT
1 CAGCCCATGTGGAATGGCT
*
41896552 CAGCCCGTGTGGAATGGCT
1 CAGCCCATGTGGAATGGCT
41896571 C
1 C
41896572 CTGAAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (19 bp):
CAGCCCATGTGGAATGGCT
Found at i:41907187 original size:12 final size:13
Alignment explanation
Indices: 41907170--41907198 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41907160 CTCATACATG
41907170 AATAAATAAA-GC
1 AATAAATAAATGC
41907182 AATAAATAAATGC
1 AATAAATAAATGC
41907195 AATA
1 AATA
41907199 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:41910133 original size:10 final size:9
Alignment explanation
Indices: 41910119--41910152 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
41910109 TACTCCGTGA
41910119 TTTTATTTT
1 TTTTATTTT
41910128 ATTTTATTTT
1 -TTTTATTTT
41910138 TTTTATGTTT
1 TTTTAT-TTT
41910148 TTTTA
1 TTTTA
41910153 AAGTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTATTTT
Found at i:41915377 original size:40 final size:40
Alignment explanation
Indices: 41915318--41915569 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
41915308 CATTTGAATG
*
41915318 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
41915358 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
41915398 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
41915438 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
41915478 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
41915518 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
41915558 ATATCC-GGCTAA
1 ATATCCGGGCTAA
41915570 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:41923802 original size:40 final size:40
Alignment explanation
Indices: 41923743--41923994 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
41923733 CATTTGAATG
*
41923743 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
41923783 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
41923823 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
41923863 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
41923903 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
41923943 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
41923983 ATATCC-GGCTAA
1 ATATCCGGGCTAA
41923995 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:41928937 original size:26 final size:26
Alignment explanation
Indices: 41928908--41928978 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
41928898 AACACACCAA
*
41928908 TATCGTAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
41928934 TATCGCAGCAAAGCTACAAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
41928960 TATCACAACAAAGCTGCCA
1 TATCGCAGCAAAGCTGCCA
41928979 ATACAGTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:41942348 original size:50 final size:50
Alignment explanation
Indices: 41942221--41942462 Score: 193
Period size: 50 Copynumber: 4.7 Consensus size: 50
41942211 GATAATAACA
* * * *
41942221 TGCCAAAGCCATGTCCCAGACATGGTCTTATATGGGATGTT-TCCTAT-GC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCGG
* * *
41942270 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * ** ** *
41942320 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * * * * *
41942370 TGCCAACGCCATGTCCTAGACATGGTCTGACGTGGGACCTT-TCATAACCTCAGTAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCAT-A--TC-G--G
* *
41942426 TGCCAATGTCATGTCCTAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
41942463 TCTCATTCCC
Statistics
Matches: 156, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.02
49 37 0.24
50 78 0.50
51 2 0.01
53 2 0.01
54 1 0.01
56 33 0.21
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:41942589 original size:18 final size:18
Alignment explanation
Indices: 41942566--41942602 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41942556 AGTCAACATT
41942566 AAATAATTTCATGAAATA
1 AAATAATTTCATGAAATA
41942584 AAATAATTTCATGAAATA
1 AAATAATTTCATGAAATA
41942602 A
1 A
41942603 GTACCTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AAATAATTTCATGAAATA
Found at i:41950572 original size:25 final size:28
Alignment explanation
Indices: 41950514--41950572 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 28
41950504 TTTCACTTTC
*
41950514 AATCATTATTCAATTCAATTCCACACAT
1 AATCATTAATCAATTCAATTCCACACAT
*
41950542 -AT-ATTAATC-ATTCAA-T-CACACTT
1 AATCATTAATCAATTCAATTCCACACAT
41950565 AATCATTA
1 AATCATTA
41950573 CATGATCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
23 6 0.22
24 3 0.11
25 10 0.37
26 6 0.22
27 2 0.07
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (28 bp):
AATCATTAATCAATTCAATTCCACACAT
Found at i:41950725 original size:51 final size:51
Alignment explanation
Indices: 41950667--41950856 Score: 192
Period size: 51 Copynumber: 3.7 Consensus size: 51
41950657 CCGGTTCACA
* *
41950667 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACATG
* * * *
41950718 TAGTAGCCTGCACATAGTACTACACACATGATCA-AAGCTATCCGGT--ATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCTGGTACATG
* * * **
41950767 CATAGTAGCCTGCACATAGTACTACACATGCGAGCTATCA-T-TCTGGTACACA
1 --TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCACTATCTGGTACATG
* *
41950819 TAGTAGCCTGCACAAAATACTACACACGTGACCATCAC
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCAC
41950857 ATTCACTTTC
Statistics
Matches: 111, Mismatches: 20, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
49 8 0.07
50 33 0.30
51 67 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACATG
Found at i:41950873 original size:101 final size:103
Alignment explanation
Indices: 41950661--41950883 Score: 240
Period size: 101 Copynumber: 2.2 Consensus size: 103
41950651 ATGATACCGG
* **
41950661 TTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACATGTAGTAGCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACATAGTAGCC
* * * **
41950726 TGCACATAGTACTACACACATGATCAAAGCTATCCGGT
66 TGCACAAAATACTACACACATGACCAAAGCTATCCACT
* * * *
41950764 AT-GCATAGTAGCCTGCACATAGTACTACACATGCGAGCTATCA-T-TCTGGTACACATAGTAGC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGA-CCATCACTATCTGATACACATAGTAGC
* * *
41950826 CTGCACAAAATACTACACACGTGACCATCA-C-ATTCACT
65 CTGCACAAAATACTACACACATGACCA-AAGCTATCCACT
* *
41950864 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTGCACA
41950884 CAGCCCATGC
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
100 5 0.05
101 53 0.54
102 34 0.35
103 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (103 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACATAGTAGCC
TGCACAAAATACTACACACATGACCAAAGCTATCCACT
Found at i:41952263 original size:10 final size:10
Alignment explanation
Indices: 41952248--41952296 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
41952238 GGGTTAAGAC
41952248 TGAGCTGAAT
1 TGAGCTGAAT
41952258 TGAGCTCGAA-
1 TGAGCT-GAAT
*
41952268 TGAGCTGACT
1 TGAGCTGAAT
* *
41952278 TGAGCTCAAG
1 TGAGCTGAAT
41952288 TGAGCTGAA
1 TGAGCTGAA
41952297 CTAAGTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:41952271 original size:20 final size:20
Alignment explanation
Indices: 41952248--41952296 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
41952238 GGGTTAAGAC
41952248 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
41952268 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
41952288 TGAGCTGAA
1 TGAGCTGAA
41952297 CTAAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:41953228 original size:33 final size:33
Alignment explanation
Indices: 41953160--41953231 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
41953150 TTCAGGAGGC
* * **
41953160 TTACCTTTAGGAGCAGGAAAATAAAGTTCTTTT
1 TTACCTTTAGGAGCAGGAAAACAAAGCTCAGTT
* *
41953193 TTACCTTTTGGAGCAGGGAAACAAAGCTCAGTT
1 TTACCTTTAGGAGCAGGAAAACAAAGCTCAGTT
41953226 TTACCT
1 TTACCT
41953232 GGCTCGATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (33 bp):
TTACCTTTAGGAGCAGGAAAACAAAGCTCAGTT
Found at i:41956761 original size:20 final size:20
Alignment explanation
Indices: 41956738--41956786 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
41956728 GGGTTAAGAT
*
41956738 TGAGCTGAATTGTGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
* * * *
41956758 TGAGATGACTTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
41956778 TGAGCTGAA
1 TGAGCTGAA
41956787 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.29
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:41962660 original size:16 final size:16
Alignment explanation
Indices: 41962639--41962670 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41962629 CTTTTGTTGC
*
41962639 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
41962655 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
41962671 GTTTCAATCA
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:41962963 original size:51 final size:51
Alignment explanation
Indices: 41962898--41963088 Score: 226
Period size: 51 Copynumber: 3.8 Consensus size: 51
41962888 CTGGTTCACA
* * *
41962898 TAGTAGCTTGCACATAGTACTACACTCGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * * * *
41962949 TAGTAGCCTTCACATAGTACTACACACGTGATCA-AAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCCGGTACACG
*** *
41963000 TAGTAGCCTGCACATAGTACTACACATACGACCTATCATTAT--GGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
*
41963050 TAGTAGCCTGCACATAATACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
41963089 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 5 0.04
50 36 0.31
51 69 0.60
52 4 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:41963064 original size:101 final size:100
Alignment explanation
Indices: 41962896--41963080 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 100
41962886 TACTGGTTCA
* *
41962896 CATAGTAGCTTGCACATAGTACTACACTCGTGACCATCACTATCCGATACACGTAGTAGCCTTCA
1 CATAGTAGCCTGCACATAGTACTACACTCG-GACCATCACTAT-CGATACACGTAGTAGCCTGCA
*
41962961 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
64 CATAATACTACACACGTGATCAAAGCTATCCGGTACG
* *
41962998 CATAGTAGCCTGCACATAGTACTACACATAC-GACCTATCATTAT-GGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACAC-T-CGGACC-ATCACTATCGATACACGTAGTAGCCTGC
41963061 ACATAATACTACACACGTGA
63 ACATAATACTACACACGTGA
41963081 CCATCACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
101 36 0.48
102 30 0.40
103 8 0.11
104 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACACTCGGACCATCACTATCGATACACGTAGTAGCCTGCACA
TAATACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:41968924 original size:12 final size:12
Alignment explanation
Indices: 41968907--41968935 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41968897 TTTGCATCAA
41968907 AGTTTTT-TAAT
1 AGTTTTTCTAAT
41968918 AGTTTTTCTAAT
1 AGTTTTTCTAAT
41968930 AGTTTT
1 AGTTTT
41968936 AAATGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.62
Consensus pattern (12 bp):
AGTTTTTCTAAT
Found at i:41969779 original size:36 final size:36
Alignment explanation
Indices: 41969711--41969786 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
41969701 ATGATGGCTA
* *
41969711 ATGTGAAAGTGAAAATGAGGGTGTGTTGTTCATGCC
1 ATGTGAAAGTGAAAATGAGGGTATGTTATTCATGCC
* *
41969747 ATGTGACAGT-AAATATGTGGGTATGTTATTCATGCC
1 ATGTGAAAGTGAAA-ATGAGGGTATGTTATTCATGCC
41969783 ATGT
1 ATGT
41969787 AATAGAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (36 bp):
ATGTGAAAGTGAAAATGAGGGTATGTTATTCATGCC
Found at i:41991322 original size:17 final size:17
Alignment explanation
Indices: 41991300--41991334 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
41991290 TAGAAGGGAA
41991300 TGTGAGCTAAGCTCCAT
1 TGTGAGCTAAGCTCCAT
41991317 TGTGAGCTAAGCTCCAT
1 TGTGAGCTAAGCTCCAT
41991334 T
1 T
41991335 CACCGAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (17 bp):
TGTGAGCTAAGCTCCAT
Found at i:41992699 original size:59 final size:58
Alignment explanation
Indices: 41992625--41992830 Score: 204
Period size: 59 Copynumber: 3.5 Consensus size: 58
41992615 TTAATAGAGG
* * *
41992625 TCGCCACGAAGGCTTTCCCTTCAAGGATTTGCAGCAAAGGCATCATTTTCTTTTAGTAC
1 TCGCCACAAAGGCTTTCCCTTCAAAGATTT-TAGCAAAGGCATCATTTTCTTTTAGTAC
* * ** *
41992684 TTGCCACAAAGGCTTT-CCTATTAAAGATTTTATATAAAGGCATCCTTTTCTTTTAGTAC
1 TCGCCACAAAGGCTTTCCCT-TCAAAGATTTTA-GCAAAGGCATCATTTTCTTTTAGTAC
* * * * *
41992743 TCACTACAAAGGCTTTCCTTTCAGAGATTTTAGACAAAGGCATCATTTTCTTTCAG-AC
1 TCGCCACAAAGGCTTTCCCTTCAAAGATTTTAG-CAAAGGCATCATTTTCTTTTAGTAC
* *
41992801 TGGCCA-AACA-GCTTTCCTTTCAAAGATTTT
1 TCGCCACAA-AGGCTTTCCCTTCAAAGATTTT
41992831 CCACAAAGGC
Statistics
Matches: 120, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
57 21 0.17
58 10 0.08
59 87 0.73
60 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (58 bp):
TCGCCACAAAGGCTTTCCCTTCAAAGATTTTAGCAAAGGCATCATTTTCTTTTAGTAC
Found at i:41994021 original size:22 final size:24
Alignment explanation
Indices: 41993971--41994022 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
41993961 ACTTCTATAC
* *
41993971 CTCCTACACTTGCCTTATTTTCTA
1 CTCCTAAAATTGCCTTATTTTCTA
41993995 C-CCTAAAATTGCCTT-TTTTC-A
1 CTCCTAAAATTGCCTTATTTTCTA
41994016 CTCCTAA
1 CTCCTAA
41994023 CAACCTCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.08
22 10 0.40
23 12 0.48
24 1 0.04
ACGTcount: A:0.21, C:0.33, G:0.04, T:0.42
Consensus pattern (24 bp):
CTCCTAAAATTGCCTTATTTTCTA
Found at i:41997475 original size:39 final size:39
Alignment explanation
Indices: 41997271--41997493 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
41997261 TTGAATGCTG
* * * * * *
41997271 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
41997311 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
41997351 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
41997391 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
41997431 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
41997470 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41997494 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:41997513 original size:79 final size:80
Alignment explanation
Indices: 41997351--41997528 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
41997341 AGATACAAGT
* * * *
41997351 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
41997416 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
41997431 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
41997495 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
41997510 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
41997529 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:42005369 original size:39 final size:39
Alignment explanation
Indices: 42005165--42005387 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
42005155 TTGAATGCTG
* * * * * *
42005165 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
42005205 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
42005245 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
42005285 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
42005325 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
42005364 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42005388 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42005407 original size:79 final size:80
Alignment explanation
Indices: 42005245--42005422 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
42005235 AGATACAAGT
* * * *
42005245 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
42005310 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
42005325 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42005389 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
42005404 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42005423 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:42007550 original size:16 final size:16
Alignment explanation
Indices: 42007529--42007560 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42007519 GAAGGTTCTA
42007529 CAAATTCCCATAACTT
1 CAAATTCCCATAACTT
*
42007545 CAAATTGCCATAACTT
1 CAAATTCCCATAACTT
42007561 TAATGCTGCT
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:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
CAAATTCCCATAACTT
Found at i:42009795 original size:33 final size:33
Alignment explanation
Indices: 42009752--42009817 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
42009742 ACATGTAGTA
*
42009752 ACAGTCTGGGCCTGAGCCCTATT-CAGTAGCAGT
1 ACAGTCTGGGCCTGAGCCC-ATTACAGTAACAGT
* *
42009785 ACAGTGTGGGCCTTAGCCCATTACAGTAACAGT
1 ACAGTCTGGGCCTGAGCCCATTACAGTAACAGT
42009818 CTGTGGGCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (33 bp):
ACAGTCTGGGCCTGAGCCCATTACAGTAACAGT
Found at i:42010027 original size:26 final size:26
Alignment explanation
Indices: 42009953--42010029 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
42009943 ACACCAATAT
* * * * *
42009953 CGCAGAAAAACTGCCAGTAATAATGA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
42009979 CACAGCAAAGCTGCCAATAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
42010005 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
42010030 TATGTGGCAG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.13
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:42010354 original size:26 final size:28
Alignment explanation
Indices: 42010204--42010508 Score: 251
Period size: 27 Copynumber: 11.3 Consensus size: 28
42010194 GGGTATAACA
* *
42010204 ATCATTTTACCCTAT-AGGGGTATTTTAG
1 ATCATTTTACCCT-TCAAGGGTATTTTCG
* * *
42010232 -TCATTTTACCATTTAGGGGTA-TTTCG
1 ATCATTTTACCCTTCAAGGGTATTTTCG
**
42010258 ATCATTTTACCCTTCGGGGGTA-TTTCG
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* * *
42010285 ATCATTTTACCCTTCGAGAGTA-TTTCA
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* *
42010312 ACCATTTTACCCTTCAAGGGTATTTTAG
1 ATCATTTTACCCTTCAAGGGTATTTTCG
*
42010340 -TCA-TTTACCCATCAAGGGTA-TTTCG
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* *
42010365 ATCATTTTACCCATCAAAGGTA-TTTCG
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* *
42010392 ATCATTTTACCCTTCAGGGGCATTTT-G
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* *
42010419 GTCATTTTACCCTTCAGGGGTA-TTTCG
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* * **
42010446 ATCAATTTGCCCTTCGGGGGTATTTT--
1 ATCATTTTACCCTTCAAGGGTATTTTCG
* * *
42010472 ATTTATTTTACCTTTCAGGGGTA-TTTCG
1 A-TCATTTTACCCTTCAAGGGTATTTTCG
*
42010500 GTCATTTTA
1 ATCATTTTA
42010509 ACCTGTGGGG
Statistics
Matches: 232, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.02
26 31 0.13
27 188 0.81
28 9 0.04
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (28 bp):
ATCATTTTACCCTTCAAGGGTATTTTCG
Found at i:42010388 original size:80 final size:81
Alignment explanation
Indices: 42010259--42010449 Score: 251
Period size: 80 Copynumber: 2.4 Consensus size: 81
42010249 GGTATTTCGA
* ** * *
42010259 TCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGAGTATTTCAACCATTTTACCC
1 TCATTTTACCCATCAAGGGTATTTCGATCATTTTACCCATCAAGAGTATTTCAACCATTTTACCC
*
42010324 TTCAAGGGTATTTTAG
66 TTCAAGGGCATTTTAG
* *
42010340 TCA-TTTACCCATCAAGGGTATTTCGATCATTTTACCCATCAA-AGGTATTTCGATCATTTTACC
1 TCATTTTACCCATCAAGGGTATTTCGATCATTTTACCCATCAAGA-GTATTTCAACCATTTTACC
* *
42010403 CTTCAGGGGCATTTTGG
65 CTTCAAGGGCATTTTAG
* *
42010420 TCATTTTACCCTTCAGGGGTATTTCGATCA
1 TCATTTTACCCATCAAGGGTATTTCGATCA
42010450 ATTTGCCCTT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 68 0.71
81 27 0.28
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (81 bp):
TCATTTTACCCATCAAGGGTATTTCGATCATTTTACCCATCAAGAGTATTTCAACCATTTTACCC
TTCAAGGGCATTTTAG
Found at i:42010425 original size:107 final size:108
Alignment explanation
Indices: 42010202--42010443 Score: 312
Period size: 107 Copynumber: 2.2 Consensus size: 108
42010192 TGGGGTATAA
* *
42010202 CAATCATTTTACCCTAT-AGGGGTATTTTAGTCATTTTACCATTTAGGGGTATTTCGATCATTTT
1 CAATCATTTTACCCT-TCAGGGGTATTTTAGTCATTTTACCATTCAAGGGTATTTCGATCATTTT
* *** *
42010266 ACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGAGTATTT
65 ACCCATCAAAGGTATTTCGATCATTTTACCCTTCGAGAGCATTT
* *
42010310 CAACCATTTTACCCTTCAAGGGTATTTTAGTCA-TTTACCCA-TCAAGGGTATTTCGATCATTTT
1 CAATCATTTTACCCTTCAGGGGTATTTTAGTCATTTTA-CCATTCAAGGGTATTTCGATCATTTT
*
42010373 ACCCATCAAAGGTATTTCGATCATTTTACCCTTC-AGGGGCATTT
65 ACCCATCAAAGGTATTTCGATCATTTTACCCTTCGA-GAGCATTT
***
42010417 TGGTCATTTTACCCTTCAGGGGTATTT
1 CAATCATTTTACCCTTCAGGGGTATTT
42010444 CGATCAATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.01
107 83 0.72
108 32 0.28
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (108 bp):
CAATCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCATTCAAGGGTATTTCGATCATTTTA
CCCATCAAAGGTATTTCGATCATTTTACCCTTCGAGAGCATTT
Found at i:42010521 original size:81 final size:80
Alignment explanation
Indices: 42010204--42010508 Score: 335
Period size: 81 Copynumber: 3.8 Consensus size: 80
42010194 GGGTATAACA
* * * *
42010204 ATCATTTTACCCTATAG-GGGTATTTTAGTCATTTTACCATTTAGGGGTATTTCGATCATTTTAC
1 ATCATTTTACCCT-TCGAGGGTATTTTA-TCATTTTACCCTTCAGGGGTATTTCGGTCATTTTAC
*
42010268 CCTTCGGGGGTATTTCG
64 CCTTCAGGGGTATTTCG
* * * * **
42010285 ATCATTTTACCCTTCGAGAGTATTTCAACCATTTTACCCTTCAAGGGTATTTTAGTCA-TTTACC
1 ATCATTTTACCCTTCGAGGGTATTT-TATCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACC
* *
42010349 CATCAAGGGTATTTCG
65 CTTCAGGGGTATTTCG
* * * * * *
42010365 ATCATTTTACCCATCAAAGGTATTTCGATCATTTTACCCTTCAGGGGCATTTTGGTCATTTTACC
1 ATCATTTTACCCTTCGAGGGTATTT-TATCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACC
42010430 CTTCAGGGGTATTTCG
65 CTTCAGGGGTATTTCG
* * * * *
42010446 ATCAATTTGCCCTTCGGGGGTATTTTATTTATTTTACCTTTCAGGGGTATTTCGGTCATTTTA
1 ATCATTTTACCCTTCGAGGGTATTTTA-TCATTTTACCCTTCAGGGGTATTTCGGTCATTTTA
42010509 ACCTGTGGGG
Statistics
Matches: 185, Mismatches: 35, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
80 71 0.38
81 113 0.61
82 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (80 bp):
ATCATTTTACCCTTCGAGGGTATTTTATCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC
TTCAGGGGTATTTCG
Found at i:42010534 original size:54 final size:54
Alignment explanation
Indices: 42010205--42010560 Score: 292
Period size: 54 Copynumber: 6.6 Consensus size: 54
42010195 GGTATAACAA
* * ** * *
42010205 TCATTTTACCCTAT-AGGGGTATTT-TAGTCATTTTACCATTTAGGGGTATTTCGA
1 TCATTTTACCCT-TCAGGGGTATTTCGA-TCATTTTACCCTTCGGGGGTATTTTGG
* * * ***
42010259 TCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGAGTATTTCAA
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGG
* * * * ** * *
42010313 CCATTTTACCCTTCAAGGGTATTT-TAGTCA-TTTACCCATCAAGGGTATTTCGA
1 TCATTTTACCCTTCAGGGGTATTTCGA-TCATTTTACCCTTCGGGGGTATTTTGG
* ** * *
42010366 TCATTTTACCCATCAAAGGTATTTCGATCATTTTACCCTTCAGGGGCATTTTGG
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGG
* * **
42010420 TCATTTTACCCTTCAGGGGTATTTCGATCAATTTGCCCTTCGGGGGTATTTTAT
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGG
* * * * *
42010474 TTATTTTACCTTTCAGGGGTATTTCGGTCATTTTAACCTGT-GGGGGTAATTTGG
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCT-TCGGGGGTATTTTGG
* * *
42010528 TCATTTTATCCTAT-GGGGGTAATTCGATCATTT
1 TCATTTTACCCT-TCAGGGGTATTTCGATCATTT
42010561 ATTGGCCTCG
Statistics
Matches: 246, Mismatches: 49, Indels: 14
0.80 0.16 0.05
Matches are distributed among these distances:
53 45 0.18
54 198 0.80
55 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGG
Found at i:42010562 original size:26 final size:27
Alignment explanation
Indices: 42010489--42010560 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
42010479 TTACCTTTCA
* * *
42010489 GGGGTATTTCGGTCATTTTAACCTGTG
1 GGGGTAATTCGGTCATTTTATCCTATG
*
42010516 GGGGTAATTTGGTCATTTTATCCTATG
1 GGGGTAATTCGGTCATTTTATCCTATG
*
42010543 GGGGTAATTCGATCATTT
1 GGGGTAATTCGGTCATTT
42010561 ATTGGCCTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.18, C:0.12, G:0.28, T:0.42
Consensus pattern (27 bp):
GGGGTAATTCGGTCATTTTATCCTATG
Found at i:42012851 original size:30 final size:28
Alignment explanation
Indices: 42012815--42012894 Score: 115
Period size: 30 Copynumber: 2.8 Consensus size: 28
42012805 AGCAGTACAA
* *
42012815 TGTGGGCCTTAGCACATTACAGCAACAG
1 TGTGGGCCTTAGCCCAATACAGCAACAG
*
42012843 TCTGTGGGCCTTAGCCCAATACAGTAACAG
1 --TGTGGGCCTTAGCCCAATACAGCAACAG
42012873 TGTGGGCCTTAGCCCAATACAG
1 TGTGGGCCTTAGCCCAATACAG
42012895 TAATCAGTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 22 0.47
30 25 0.53
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGCAACAG
Found at i:42012885 original size:28 final size:28
Alignment explanation
Indices: 42012774--42012902 Score: 125
Period size: 28 Copynumber: 4.4 Consensus size: 28
42012764 ATACAACATG
* *
42012774 CAGTAACAGTCTGGGCCTGAGCCCTATCAGTA
1 CAGTAACAGTGTGGGCCTTAGCCC-A--A-TA
* * *
42012806 GCAGT-ACAATGTGGGCCTTAGCACATTA
1 -CAGTAACAGTGTGGGCCTTAGCCCAATA
*
42012834 CAGCAACAGTCTGTGGGCCTTAGCCCAATA
1 CAGTAACAG--TGTGGGCCTTAGCCCAATA
42012864 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
42012892 CAGTAATCAGT
1 CAGTAA-CAGT
42012903 ACAATGCAGT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
27 3 0.04
28 30 0.37
29 4 0.05
30 25 0.30
31 1 0.01
32 15 0.18
33 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:42013051 original size:26 final size:26
Alignment explanation
Indices: 42013013--42013080 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
42013003 ATATCACAAT
* * * *
42013013 AAAGCTACAAGTAATAATGACGCGGC
1 AAAGCTGCAAGTAACAATAACGCAGC
* *
42013039 AAAGCTGCCAGTAACAGTAACGCAGC
1 AAAGCTGCAAGTAACAATAACGCAGC
*
42013065 AAAGCTGCTAGTAACA
1 AAAGCTGCAAGTAACA
42013081 GTATATGTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (26 bp):
AAAGCTGCAAGTAACAATAACGCAGC
Found at i:42013081 original size:26 final size:26
Alignment explanation
Indices: 42013032--42013083 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
42013022 AGTAATAATG
*
42013032 ACGCGGCAAAGCTGCCAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
*
42013058 ACGCAGCAAAGCTGCTAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
42013084 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.13
Consensus pattern (26 bp):
ACGCAGCAAAGCTGCCAGTAACAGTA
Found at i:42013327 original size:27 final size:27
Alignment explanation
Indices: 42013224--42013338 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
42013214 GGGTATAACA
* * *
42013224 ATCATTTTACCCTATGGGGGTATTT-T
1 ATCATTTTACCCTTTAGGGGTATTTCG
42013250 AGTCATTTTACCCTTTAGGGGTATTTCG
1 A-TCATTTTACCCTTTAGGGGTATTTCG
*
42013278 ATCATTTTA-TCTTTCAGGGGTATTTCG
1 ATCATTTTACCCTTT-AGGGGTATTTCG
*
42013305 ATCATTTTACCCTTT-GGTAGTATTTCG
1 ATCATTTTACCCTTTAGG-GGTATTTCG
*
42013332 GTCATTT
1 ATCATTT
42013339 AAATTTGACC
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
26 7 0.09
27 65 0.84
28 5 0.06
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (27 bp):
ATCATTTTACCCTTTAGGGGTATTTCG
Found at i:42013928 original size:41 final size:41
Alignment explanation
Indices: 42013871--42014154 Score: 331
Period size: 41 Copynumber: 7.0 Consensus size: 41
42013861 GTACATCCAG
* *
42013871 GGGTACCGAAGTACAAACAGGGGCACGTCTGTGCATTTCAA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * *
42013912 GGGTATCGAAGTACAAACAGGGGCACCTATGTGCATTTCAA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* *
42013953 GGGTATCGAAGTACAAACAGGGGCAGGTATGTGCAATTCAA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * * *
42013994 GGGTACCAAAATACAAACAGGGGCATGTATGTGCAATTCAG
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * * * *
42014035 GGGTACTGAAGTACAAACAAGGGCATGTATGTGTAATTCAG
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * * *
42014076 GGGTACCAAAGTTC-AACAGGGGCACGTATGTGCAATGCAG
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * *
42014116 GGGTACTGAAGTGCAATA-A-GGGCACGTATGTGTAATTCA
1 GGGTACCGAAGTACAA-ACAGGGGCACGTATGTGCAATTCA
42014155 TCATTATTCG
Statistics
Matches: 213, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 51 0.24
41 161 0.76
42 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
Found at i:42014037 original size:21 final size:21
Alignment explanation
Indices: 42014011--42014078 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
42014001 AAAATACAAA
42014011 CAGGGGCATGTATGTGCAATT
1 CAGGGGCATGTATGTGCAATT
* * * *
42014032 CAGGGGTACTG-AAGTACAA-A
1 CAGGGGCA-TGTATGTGCAATT
* *
42014052 CAAGGGCATGTATGTGTAATT
1 CAGGGGCATGTATGTGCAATT
42014073 CAGGGG
1 CAGGGG
42014079 TACCAAAGTT
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 18 0.55
22 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (21 bp):
CAGGGGCATGTATGTGCAATT
Found at i:42014118 original size:21 final size:20
Alignment explanation
Indices: 42014011--42014147 Score: 57
Period size: 21 Copynumber: 6.8 Consensus size: 20
42014001 AAAATACAAA
*
42014011 CAGGGGCATGTATGTGCAATT
1 CAGGGGCACGTATGTGCAA-T
* * * *
42014032 CAGGGGTAC-TGAAGTACAAA
1 CAGGGGCACGT-ATGTGCAAT
* * *
42014052 CAAGGGCATGTATGTGTAATT
1 CAGGGGCACGTATGTGCAA-T
* ** * *
42014073 CAGGGGTACCAAAGTTCAA-
1 CAGGGGCACGTATGTGCAAT
42014092 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* *
42014112 GCAGGGGTAC-TGAAGTGCAAT
1 -CAGGGGCACGT-ATGTGCAAT
*
42014133 -AAGGGCACGTATGTG
1 CAGGGGCACGTATGTG
42014148 TAATTCATCA
Statistics
Matches: 79, Mismatches: 30, Indels: 16
0.63 0.24 0.13
Matches are distributed among these distances:
19 24 0.30
20 14 0.18
21 41 0.52
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:42017750 original size:20 final size:20
Alignment explanation
Indices: 42017656--42017757 Score: 89
Period size: 20 Copynumber: 5.1 Consensus size: 20
42017646 TTGTACGAGA
* *
42017656 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTTGGTGCCCCTG
*
42017676 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTG
* * * *
42017696 TATACATTTTGGTGTCCCTG
1 TTTGCACTTTGGTGCCCCTG
**
42017716 TTTATACATTT-GTGCCCCTG
1 TTTGCAC-TTTGGTGCCCCTG
* *
42017736 TCTGCACTTTGGTGCCACTG
1 TTTGCACTTTGGTGCCCCTG
42017756 TT
1 TT
42017758 ATACATCTAT
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
19 3 0.05
20 57 0.90
21 3 0.05
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTG
Found at i:42023562 original size:30 final size:30
Alignment explanation
Indices: 42023526--42023583 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
42023516 GATTCATGAT
42023526 TGTGTTAAAACACAAGCAAATCTGAGGGCC
1 TGTGTTAAAACACAAGCAAATCTGAGGGCC
*
42023556 TGTGTTAAAACACAAGCAAGTCTGAGGG
1 TGTGTTAAAACACAAGCAAATCTGAGGG
42023584 GGGAATATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (30 bp):
TGTGTTAAAACACAAGCAAATCTGAGGGCC
Found at i:42032224 original size:91 final size:90
Alignment explanation
Indices: 42032048--42032239 Score: 267
Period size: 91 Copynumber: 2.1 Consensus size: 90
42032038 GATGGCTGAG
*
42032048 GTCGCGACATCAAGGTACGATGTCGCAACGCACCTTGCATTTTCAAATTCCTGGAAAACTATCTA
1 GTCGCGACATCAAGGTACGATGTCGCAACACACCTTGCATTTTCAAATTCCTGGAAAACTATCTA
* *
42032113 CCATGTCGCGACATAGGATAGTGGT
66 CCACGTCGCGACACAGGATAGTGGT
* * ** * * *
42032138 GTCGTGACATCAGGGTACGATGTTTCAACACACCTTGCATTTTTCAAATTCTTGGGAAACTGTCT
1 GTCGCGACATCAAGGTACGATGTCGCAACACACCTTGCA-TTTTCAAATTCCTGGAAAACTATCT
*
42032203 ACCACGTCGTGACACAGGATAGTGGT
65 ACCACGTCGCGACACAGGATAGTGGT
*
42032229 GTTGCGACATC
1 GTCGCGACATC
42032240 GATGTGATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 34 0.39
91 54 0.61
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (90 bp):
GTCGCGACATCAAGGTACGATGTCGCAACACACCTTGCATTTTCAAATTCCTGGAAAACTATCTA
CCACGTCGCGACACAGGATAGTGGT
Found at i:42038471 original size:20 final size:21
Alignment explanation
Indices: 42038443--42038481 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
42038433 TAAATTCCAA
42038443 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
42038463 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
42038482 AAACCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:42043147 original size:56 final size:56
Alignment explanation
Indices: 42043061--42043180 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42043051 ACAAGGGATG
42043061 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
42043117 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42043173 ATGGGCAA
1 ATGGGCAA
42043181 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42044502 original size:40 final size:39
Alignment explanation
Indices: 42044312--42044495 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
42044302 CGAATGATGT
* * * *
42044312 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
42044352 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
42044392 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42044430 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42044471 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42044496 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42044517 original size:79 final size:79
Alignment explanation
Indices: 42044364--42044518 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
42044354 GGACTAAGAT
* **
42044364 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42044429 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* *
42044443 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
42044506 TATATC-CGGTTAA
63 TAAATCTCGGTTAA
42044519 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:42050983 original size:55 final size:56
Alignment explanation
Indices: 42050899--42051017 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
42050889 ACAAGGGATG
42050899 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42050954 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42051010 ATGGGCAA
1 ATGGGCAA
42051018 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:42052306 original size:40 final size:40
Alignment explanation
Indices: 42052158--42052341 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
42052148 TCGAATGATG
* * * *
42052158 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
42052198 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42052237 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42052276 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42052317 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42052342 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42052359 original size:80 final size:77
Alignment explanation
Indices: 42052214--42052364 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 77
42052204 CTAAGATCCG
** **
42052214 AAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 AAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCC
42052279 GGGTTAAGTCCCA
66 -GGTTAAGTCCCA
* * *
42052292 AAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 AAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
42052356 TCCGGTTAA
63 TCCGGTTAA
42052365 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 22 0.35
79 17 0.27
80 24 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
AAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCC
GGTTAAGTCCCA
Found at i:42058888 original size:56 final size:56
Alignment explanation
Indices: 42058802--42058921 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42058792 ACAAGGGATG
42058802 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
42058858 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42058914 ATGGGCAA
1 ATGGGCAA
42058922 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42060163 original size:39 final size:41
Alignment explanation
Indices: 42060062--42060244 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
42060052 TCGAATGATG
* * *
42060062 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
42060102 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
42060142 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
42060181 TCCGGGTTAAGTCCCGAAGGC--TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
42060219 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42060245 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 31 0.25
39 35 0.29
40 45 0.37
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:42060198 original size:79 final size:79
Alignment explanation
Indices: 42060062--42060242 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 79
42060052 TCGAATGATG
* *
42060062 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGC--T
42060126 TGTGCGAGTTACTA-A
64 TGTGCGAGTTACTATA
* * * **
42060141 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCT
42060203 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* * *
42060219 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42060243 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
77 23 0.26
78 14 0.16
79 33 0.38
80 17 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCTTG
TGCGAGTTACTATA
Found at i:42060266 original size:77 final size:78
Alignment explanation
Indices: 42060115--42060277 Score: 181
Period size: 77 Copynumber: 2.1 Consensus size: 78
42060105 GGACTAAGAT
* * **
42060115 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCA-TTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42060180 ATCCGGGTTAAGTC
65 ATCCGGGTTAAATC
* *
42060194 CCGAAGGC-TTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
42060256 ATATCC-GGTTAAATT
63 AAATCCGGGTTAAATC
42060271 CCGAAGG
1 CCGAAGG
42060278 TACGTGATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
76 2 0.03
77 38 0.53
78 24 0.33
79 8 0.11
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:42068078 original size:29 final size:28
Alignment explanation
Indices: 42068043--42068221 Score: 191
Period size: 29 Copynumber: 6.2 Consensus size: 28
42068033 TGTGCTAAAT
** *
42068043 GATGGTCGAAGCCATCTTTTTTTATATTC
1 GATGGTCGAA-CCATCCCTTTTCATATTC
**
42068072 GATGGTCGTCTCCATCCCTTTTCATATTC
1 GATGGTCG-AACCATCCCTTTTCATATTC
*
42068101 AATGGTC-ATCACCATCCCTTTTCATATTC
1 GATGGTCGA--ACCATCCCTTTTCATATTC
* *
42068130 GATGGTTGTCACCATCCCTTTTTCATATTC
1 GATGGTCG-AACCATCCC-TTTTCATATTC
*
42068160 GATGGTCGAAACCATCCTTTTTCATATTC
1 GATGGTCG-AACCATCCCTTTTCATATTC
42068189 GAT-GTCGAAACCATCCCTTTTCATATTC
1 GATGGTCG-AACCATCCCTTTTCATATTC
42068217 GATGG
1 GATGG
42068222 GCATCAATAC
Statistics
Matches: 127, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
28 27 0.21
29 75 0.59
30 25 0.20
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.40
Consensus pattern (28 bp):
GATGGTCGAACCATCCCTTTTCATATTC
Found at i:42068134 original size:58 final size:58
Alignment explanation
Indices: 42068061--42068227 Score: 221
Period size: 59 Copynumber: 2.9 Consensus size: 58
42068051 AAGCCATCTT
* * *
42068061 TTTTTATATTCGATGGTCGTCTCCATCCCTTTTCATATTCAATGGTCATCACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCATCACCATCCC
* * *
42068119 TTTTCATATTCGATGGTTGTCACCATCCCTTTTTCATATTCGATGGTCGA-AACCATCCT
1 TTTTCATATTCGATGGTCGTCACCATCCC-TTTTCATATTCGATGGTC-ATCACCATCCC
** *
42068178 TTTTCATATTCGAT-GTCGAAACCATCCCTTTTCATATTCGATGGGCATCA
1 TTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCATCA
42068228 ATACTTTGTT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
56 1 0.01
57 18 0.19
58 37 0.39
59 38 0.40
60 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (58 bp):
TTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCATCACCATCCC
Found at i:42084863 original size:24 final size:24
Alignment explanation
Indices: 42084831--42084879 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
42084821 TATTGACTTA
42084831 ATATTTTAATAGAGTGATTTTGTT
1 ATATTTTAATAGAGTGATTTTGTT
42084855 ATATTTTAATAGAGTGATTTTGTT
1 ATATTTTAATAGAGTGATTTTGTT
42084879 A
1 A
42084880 AGGTTGTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (24 bp):
ATATTTTAATAGAGTGATTTTGTT
Found at i:42102259 original size:4 final size:4
Alignment explanation
Indices: 42102252--42102280 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
42102242 AAAAATTCAA
42102252 AAAG AAAG AAAG AAAG AAA- AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
42102281 GAACGCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:42107900 original size:39 final size:38
Alignment explanation
Indices: 42107825--42107902 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
42107815 CTAACACTCA
* * *
42107825 CGCCAACTAGTTAGTAACTAACATACCCTGCTAGTGGC
1 CGCCAACTAGTTAATAACTAACATACCCTACAAGTGGC
* **
42107863 CGCCAAACTATTTAATAACTAACATGTCCTACAAGTGGC
1 CGCC-AACTAGTTAATAACTAACATACCCTACAAGTGGC
42107902 C
1 C
42107903 CATCATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.12
39 29 0.88
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (38 bp):
CGCCAACTAGTTAATAACTAACATACCCTACAAGTGGC
Found at i:42107992 original size:14 final size:14
Alignment explanation
Indices: 42107973--42108001 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42107963 GATACCGAGC
42107973 ACATACCCCTAAGT
1 ACATACCCCTAAGT
42107987 ACATACCCCTAAGT
1 ACATACCCCTAAGT
42108001 A
1 A
42108002 AATCATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.34, G:0.07, T:0.21
Consensus pattern (14 bp):
ACATACCCCTAAGT
Found at i:42110167 original size:27 final size:27
Alignment explanation
Indices: 42110137--42110210 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
42110127 CAAGTTCATT
*
42110137 ACCACAAAGGCTTTCTTTTCGTAAATC
1 ACCACAAAGGCTTTCTTTTCATAAATC
*
42110164 ACCACAAA--CTCTTCATTTTACATAGATC
1 ACCACAAAGGCT-TTC-TTTT-CATAAATC
*
42110192 ACCACACAGGCTTT-TTTTC
1 ACCACAAAGGCTTTCTTTTC
42110211 TGGCGTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 2 0.05
26 4 0.10
27 16 0.41
28 13 0.33
29 2 0.05
30 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (27 bp):
ACCACAAAGGCTTTCTTTTCATAAATC
Found at i:42112856 original size:25 final size:25
Alignment explanation
Indices: 42112822--42112913 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
42112812 TCCTGTACAT
*
42112822 GTATTCTCACACGAGCTATGAAA-CG
1 GTATGCTCACACGAGCTAT-AAATCG
* *
42112847 GTATGCTCACACGAGCTGTAAATTG
1 GTATGCTCACACGAGCTATAAATCG
* * *
42112872 GTTTGCTCACACGAGCTGTAAATCA
1 GTATGCTCACACGAGCTATAAATCG
*
42112897 GT-TAGCTCACATGAGCT
1 GTAT-GCTCACACGAGCT
42112914 GTGGAAATGG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
24 4 0.07
25 54 0.93
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCG
Found at i:42112914 original size:25 final size:25
Alignment explanation
Indices: 42112851--42112915 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
42112841 GAAACGGTAT
** *
42112851 GCTCACACGAGCTGTAAATTGGTTT
1 GCTCACACGAGCTGTAAATCAGTTA
42112876 GCTCACACGAGCTGTAAATCAGTTA
1 GCTCACACGAGCTGTAAATCAGTTA
*
42112901 GCTCACATGAGCTGT
1 GCTCACACGAGCTGT
42112916 GGAAATGGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GCTCACACGAGCTGTAAATCAGTTA
Found at i:42114181 original size:25 final size:25
Alignment explanation
Indices: 42114150--42114207 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
42114140 GCTGTAAACA
* *
42114150 GTAAGCTCATACGAGCTAAATATCG
1 GTAAGCTCATACAAGCTAAATACCG
* *
42114175 GTAAGCTCATGCAAGCTGAATACCG
1 GTAAGCTCATACAAGCTAAATACCG
*
42114200 ATAAGCTC
1 GTAAGCTC
42114208 TCTCGAGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (25 bp):
GTAAGCTCATACAAGCTAAATACCG
Found at i:42114636 original size:8 final size:8
Alignment explanation
Indices: 42114623--42114648 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
42114613 ACCCATATTT
42114623 TTCACAAA
1 TTCACAAA
42114631 TTCACAAA
1 TTCACAAA
42114639 TTCACAAA
1 TTCACAAA
42114647 TT
1 TT
42114649 TACCACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (8 bp):
TTCACAAA
Found at i:42116870 original size:20 final size:20
Alignment explanation
Indices: 42116829--42116878 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
42116819 CAGCTCAAAC
* *
42116829 TAGCTCACTTGAGCTTATTT
1 TAGCTCACTTGAGCTCAATT
*
42116849 TAGCTCATTTGAGCTCAATT
1 TAGCTCACTTGAGCTCAATT
*
42116869 TAGCTTACTT
1 TAGCTCACTT
42116879 TCAGCTCGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (20 bp):
TAGCTCACTTGAGCTCAATT
Found at i:42116884 original size:21 final size:20
Alignment explanation
Indices: 42116818--42116885 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
42116808 TGAGCTCCAC
** *
42116818 TCAGCTCAAACTAGCTCACT
1 TCAGCTCAATTTAGCTCATT
* * *
42116838 TGAGCTTATTTTAGCTCATT
1 TCAGCTCAATTTAGCTCATT
* *
42116858 TGAGCTCAATTTAGCTTACTT
1 TCAGCTCAATTTAGCTCA-TT
42116879 TCAGCTC
1 TCAGCTC
42116886 GTCCCTTTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
20 29 0.78
21 8 0.22
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (20 bp):
TCAGCTCAATTTAGCTCATT
Found at i:42119702 original size:29 final size:29
Alignment explanation
Indices: 42119658--42119714 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
42119648 AGCCCCATGA
* * *
42119658 CAAGTGGTATCCGAGTTGTTGGTTCGAAC
1 CAAGTGATATCCGAGTTATTGATTCGAAC
*
42119687 CAAGTGATATCTGAGTTATTGATTCGAA
1 CAAGTGATATCCGAGTTATTGATTCGAA
42119715 TACACAGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (29 bp):
CAAGTGATATCCGAGTTATTGATTCGAAC
Found at i:42123875 original size:14 final size:14
Alignment explanation
Indices: 42123854--42123889 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
42123844 TCCAACAAAG
42123854 AACA-TCCTACAAT
1 AACATTCCTACAAT
*
42123867 AACATTCCTCCAAT
1 AACATTCCTACAAT
42123881 AACATTCCT
1 AACATTCCT
42123890 GGGCACCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (14 bp):
AACATTCCTACAAT
Found at i:42127531 original size:39 final size:38
Alignment explanation
Indices: 42127482--42127581 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 38
42127472 CGAATATAAT
* *
42127482 AATTATAATTACCATAATTATAATAATGCTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATACTTGACCG-AA
* * * *
42127521 AATTACAATTACAATAATTATAATAATATTTGATCGTA
1 AATTATAATTACAATAATTATAATAATACTTGACCGAA
42127559 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
42127582 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 23 0.43
39 31 0.57
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATACTTGACCGAA
Found at i:42134600 original size:23 final size:22
Alignment explanation
Indices: 42134549--42134600 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
42134539 CCTCGTCTTT
*
42134549 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
42134571 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
42134594 TTCTTTT
1 TTCTTTT
42134601 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:42137662 original size:20 final size:20
Alignment explanation
Indices: 42137634--42137688 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
42137624 ATGGGATTGG
*
42137634 ACTTCGGTGCCTCTGTTTTC
1 ACTTTGGTGCCTCTGTTTTC
*
42137654 ACTTTGGTGTCTCTGTTTTC
1 ACTTTGGTGCCTCTGTTTTC
42137674 ACTTTGGTGCCTCTG
1 ACTTTGGTGCCTCTG
42137689 ATTGCACAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.05, C:0.25, G:0.22, T:0.47
Consensus pattern (20 bp):
ACTTTGGTGCCTCTGTTTTC
Found at i:42146921 original size:47 final size:47
Alignment explanation
Indices: 42146858--42147178 Score: 475
Period size: 47 Copynumber: 6.7 Consensus size: 47
42146848 CCCTTCGGGA
* * * *
42146858 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGG
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
42146905 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42146952 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
42146999 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
42147046 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42147095 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42147142 CTTATCACATATATATACACTTTCACATTTATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
42147179 CATGTACAGA
Statistics
Matches: 253, Mismatches: 15, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 182 0.72
49 69 0.27
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:42147091 original size:96 final size:96
Alignment explanation
Indices: 42146858--42147178 Score: 492
Period size: 96 Copynumber: 3.4 Consensus size: 96
42146848 CCCTTCGGGA
* * *
42146858 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGGCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
42146921 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
42146952 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
42147014 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
42147046 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
42147111 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
*
42147142 CTTATCACATATATATACACTTTCACATTTATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
42147179 CATGTACAGA
Statistics
Matches: 205, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
93 3 0.01
94 87 0.42
96 113 0.55
97 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:42147118 original size:143 final size:141
Alignment explanation
Indices: 42146879--42147150 Score: 456
Period size: 143 Copynumber: 1.9 Consensus size: 141
42146869 TATACACTTC
*
42146879 CACATCCATCACATTGGCCATTCGGGCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
* * * *
42146944 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
66 CATTCGGCCTTATCACATATATACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
42147009 ATACACATGTT
131 ATACACATGTT
*
42147020 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
42147085 GCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCA
64 GCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATCGGCCATTAGGCCTTATCA
42147149 CA
128 CA
42147151 TATATATACA
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
141 32 0.26
143 89 0.73
144 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (141 bp):
CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
CATTCGGCCTTATCACATATATACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
ATACACATGTT
Found at i:42154074 original size:104 final size:105
Alignment explanation
Indices: 42153828--42154095 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
42153818 TTGTATATAA
** *
42153828 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
42153892 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
42153933 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
42153998 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
42154037 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
42154096 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:42157860 original size:19 final size:19
Alignment explanation
Indices: 42157836--42157873 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42157826 AAAGTTAATA
42157836 AAAAATTTGATTACGGTGG
1 AAAAATTTGATTACGGTGG
*
42157855 AAAAATTTTATTACGGTGG
1 AAAAATTTGATTACGGTGG
42157874 GTGATAATAG
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:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (19 bp):
AAAAATTTGATTACGGTGG
Found at i:42169476 original size:43 final size:43
Alignment explanation
Indices: 42169415--42169503 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
42169405 CAACAATCCA
*
42169415 TTATTTTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
1 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
42169458 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
1 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
42169501 TTA
1 TTA
42169504 CTTGACCATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.51
Consensus pattern (43 bp):
TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
Found at i:42172427 original size:41 final size:41
Alignment explanation
Indices: 42172367--42172449 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
42172357 TTGCTCAGAT
* *
42172367 AATGGATAGGTGCTTGAATTAATTAACAACAAGTCAACAAA
1 AATGGATAGGTGATTGAATTAATTAACAACAAATCAACAAA
42172408 AATGGATAGGT-ATTAGAATTAATTAACAACAAATCAACAAA
1 AATGGATAGGTGATT-GAATTAATTAACAACAAATCAACAAA
42172449 A
1 A
42172450 TAAAAAGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (41 bp):
AATGGATAGGTGATTGAATTAATTAACAACAAATCAACAAA
Found at i:42178150 original size:15 final size:17
Alignment explanation
Indices: 42178116--42178153 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
42178106 TAATTTATTT
42178116 ATTTTTATTATTTTAGA
1 ATTTTTATTATTTTAGA
*
42178133 ATTTTTA-TA-TTTATA
1 ATTTTTATTATTTTAGA
42178148 ATTTTT
1 ATTTTT
42178154 TTCCTTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTATTATTTTAGA
Found at i:42179502 original size:43 final size:43
Alignment explanation
Indices: 42179449--42179570 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
42179439 TTTTTGTGAG
* * * * *
42179449 AAGCGTCGCTAAAAGT-TTTTTCTATAGTGGCGTTTGTGATAAA
1 AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTTGTG-GAAA
*
42179492 AAGCGCCGCTAAAAGTCATTGTCTTTAGCGGCGTTTGTGGAAA
1 AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTTGTGGAAA
* * *
42179535 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTT
42179571 ATTTCGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 52 0.74
44 18 0.26
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTTGTGGAAA
Found at i:42181281 original size:27 final size:26
Alignment explanation
Indices: 42181246--42181523 Score: 261
Period size: 27 Copynumber: 10.4 Consensus size: 26
42181236 GGTATAACGG
* *
42181246 TCATCTTACCCTATAGAGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* * * *
42181273 TAATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
42181300 TTATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
*
42181327 TCATTTTATCCTATGGGGTATTTCGA
1 TCATTTTACCCTATGGGGTATTTCGA
* *
42181353 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
*
42181380 TCATTTTACCTTATGGGGTATTTC-A
1 TCATTTTACCCTATGGGGTATTTCGA
* * *
42181405 GTCATTTTACCATATGGGGGTATTTTGG
1 -TCATTTTACCCTAT-GGGGTATTTCGA
42181433 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATG-GGGTATTTCGA
* * *
42181460 TTATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* * * *
42181487 CCACTTTATCCTATGGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
*
42181514 TTATTTTACC
1 TCATTTTACC
42181524 TATTTTGGGG
Statistics
Matches: 207, Mismatches: 38, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
26 47 0.23
27 159 0.77
28 1 0.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:42181321 original size:54 final size:53
Alignment explanation
Indices: 42181251--42181523 Score: 334
Period size: 54 Copynumber: 5.1 Consensus size: 53
42181241 AACGGTCATC
* * * * *
42181251 TTACCCTATAGAGGTATTTCGATAATTTTACCTTATGGGGGTATTTTGGTTATT
1 TTACCCTATAGGGGTATTTTGGTCATTTTACC-TATGGGGGTATTTCGGTTATT
* * * *
42181305 TTACCCTATGGGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTCGATCATT
1 TTACCCTATAGGGGTATTTTGGTCATTTTA-CCTATGGGGGTATTTCGGTTATT
* *
42181358 TTACCCTATAGGGGTATTTTGGTCATTTTACCTTAT-GGGGTATTTCAGTCATT
1 TTACCCTATAGGGGTATTTTGGTCATTTTACC-TATGGGGGTATTTCGGTTATT
* * * *
42181411 TTACCATATGGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGATTATT
1 TTACCCTATAGGGGTATTTTGGTCATTTTA-CCTATGGGGGTATTTCGGTTATT
* *
42181465 TTACCCTATAGGGGTATTTTGGCCACTTTATCCTATGGGGGTATTTCGGTTATT
1 TTACCCTATAGGGGTATTTTGGTCATTTTA-CCTATGGGGGTATTTCGGTTATT
42181519 TTACC
1 TTACC
42181524 TATTTTGGGG
Statistics
Matches: 191, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 91 0.48
54 96 0.50
55 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (53 bp):
TTACCCTATAGGGGTATTTTGGTCATTTTACCTATGGGGGTATTTCGGTTATT
Found at i:42184866 original size:41 final size:41
Alignment explanation
Indices: 42184815--42184919 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
42184805 CCCGATTCAA
* ** * *
42184815 TTCACCGGCAATTAGCCTGCTAGACTTATCGTCTGAATTAT
1 TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
** *
42184856 TTCACCGGCAAAAAACCTGCTAGACATAAAGTCTGAATAAC
1 TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
*
42184897 TTCACCGGC-CTTAGGCCTGCTAG
1 TTCACCGGCAATTA-GCCTGCTAG
42184920 GTTTTAAACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
Found at i:42186604 original size:13 final size:13
Alignment explanation
Indices: 42186586--42186610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42186576 TCAAACTATC
42186586 AAATTTTCACACG
1 AAATTTTCACACG
42186599 AAATTTTCACAC
1 AAATTTTCACAC
42186611 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:42209670 original size:42 final size:42
Alignment explanation
Indices: 42209611--42209717 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
42209601 GCCAAGCCAC
* * *
42209611 ACGCCCGTGTGCCAGGCCGTGTACCCTTCGGAATAACCCTAT
1 ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
* *
42209653 ACGCCCATGTACTAGGCCGTGTACCCTTTGGAATAACCCCAT
1 ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
* * *
42209695 ACGGCCGTGTGCCAGGCCGTGTA
1 ACGCCCATGTACCAGGCCGTGTA
42209718 ATAGCCTAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.21
Consensus pattern (42 bp):
ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
Found at i:42209870 original size:43 final size:43
Alignment explanation
Indices: 42209762--42209872 Score: 195
Period size: 43 Copynumber: 2.6 Consensus size: 43
42209752 GGCACACGAC
* *
42209762 CACGGCTAAGACACACGACCGTATCACCTAGCCGTGTGTCACA
1 CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
42209805 CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
1 CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
*
42209848 CACGGCTGAGACACACGTCCGTGTC
1 CACGGCTGAGACACACGACCGTGTC
42209873 TCTGACTGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.16
Consensus pattern (43 bp):
CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
Found at i:42220478 original size:50 final size:50
Alignment explanation
Indices: 42220350--42220640 Score: 325
Period size: 50 Copynumber: 5.8 Consensus size: 50
42220340 GATAATAACA
* ** * *
42220350 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
42220399 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
42220449 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCTTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
42220499 TGCCAACGCCATATCCTAGATATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
42220549 TGCCAACGCCATGTCCCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
42220599 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42220641 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 38, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 162 0.80
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:42222966 original size:40 final size:40
Alignment explanation
Indices: 42222929--42223153 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
42222919 GCTACTCGTT
* *
42222929 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42222969 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42223009 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * * *
42223049 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCCCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
42223088 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42223129 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42223154 CATCATTCGA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.19
40 117 0.73
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42223910 original size:40 final size:40
Alignment explanation
Indices: 42223866--42224010 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
42223856 AAGTGACCAT
* * *
42223866 ATCCGGACTAAGAT-CTGAAGGCATTGGTGTGAGTTATTAA
1 ATCCGGACTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAA
** * *
42223906 ATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGTCCCGAAGGCATTGGTGCGAGTTACTAA
** *
42223946 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-A
* *
42223987 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGACTAAGTCCCGAAGGCATT
42224011 TGAACGAGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 90 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTGGTGCGAGTTACTAA
Found at i:42224019 original size:40 final size:40
Alignment explanation
Indices: 42223882--42224012 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
42223872 ACTAAGATCT
* * *
42223882 GAAGGCATTGGTGTGAGTTATTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
*
42223922 GAAGGTATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* *
42223962 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
42224002 GAAGGCATTTG
1 GAAGGCATTTG
42224013 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 81 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:42224019 original size:80 final size:79
Alignment explanation
Indices: 42223882--42224045 Score: 188
Period size: 80 Copynumber: 2.1 Consensus size: 79
42223872 ACTAAGATCT
* * * * **
42223882 GAAGGCATTGGTGTGAGTTATTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTA-CTAA
1 GAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAA
*
42223946 ATCCGGGTTAAGTCCC
65 ATCC-GGTTAAATCCC
* * *
42223962 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTAT
1 GAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAA
*
42224026 ATCCGGTTAAATTCC
65 ATCCGGTTAAATCCC
42224041 GAAGG
1 GAAGG
42224046 TACGTGATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
79 16 0.23
80 53 0.75
81 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (79 bp):
GAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAA
TCCGGTTAAATCCC
Found at i:42231246 original size:119 final size:120
Alignment explanation
Indices: 42230956--42231253 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 120
42230946 CCAAATCACG
* * * ** * * *
42230956 TACCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA
1 TACCTTCGGGACTTAACCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAACCCGATTA
*
42231019 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAA
65 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
* *
42231075 TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATT-
1 TACCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCC-GATTA
* * *
42231139 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAA
65 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
* ** * * *
42231194 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 TACCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
42231254 GACATCATTC
Statistics
Matches: 154, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
118 4 0.03
119 79 0.51
120 68 0.44
121 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (120 bp):
TACCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGATTAT
AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
Found at i:42231255 original size:40 final size:40
Alignment explanation
Indices: 42230972--42231255 Score: 335
Period size: 40 Copynumber: 7.1 Consensus size: 40
42230962 CGGAATTTAA
** *
42230972 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42231012 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42231052 CCGGATTTAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42231092 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42231132 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42231171 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
42231211 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42231251 CCGGA
1 CCGGA
42231256 CATCATTCGA
Statistics
Matches: 215, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 170 0.79
41 12 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42232450 original size:56 final size:56
Alignment explanation
Indices: 42232383--42232502 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42232373 TATTAGTTTA
42232383 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
42232439 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
42232495 TTGCCCAT
1 TTGCCCAT
42232503 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:42242373 original size:101 final size:101
Alignment explanation
Indices: 42242224--42242425 Score: 386
Period size: 101 Copynumber: 2.0 Consensus size: 101
42242214 GTATAATAAG
42242224 ATTGACACATTTTGCACTGAAATTTATCAACTCCATGATAGCCTTACAAAATTCTAATTAATTCT
1 ATTGACACATTTTGCACTGAAATTTATCAACTCCATGATAGCCTTACAAAATTCTAATTAATTCT
42242289 ATTTTATGCTATACTAATATCAATCTTCAAAACTAT
66 ATTTTATGCTATACTAATATCAATCTTCAAAACTAT
42242325 ATTGACACATTTTGCACTGAAATTTATCAACTCCATGATAGCCTTACAAAATTCTAATTAATTCT
1 ATTGACACATTTTGCACTGAAATTTATCAACTCCATGATAGCCTTACAAAATTCTAATTAATTCT
* *
42242390 ATTTTATGCTGTACTAATATCAATCTTCAAGACTAT
66 ATTTTATGCTATACTAATATCAATCTTCAAAACTAT
42242426 GAAAGATCTT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.39
Consensus pattern (101 bp):
ATTGACACATTTTGCACTGAAATTTATCAACTCCATGATAGCCTTACAAAATTCTAATTAATTCT
ATTTTATGCTATACTAATATCAATCTTCAAAACTAT
Found at i:42255772 original size:22 final size:21
Alignment explanation
Indices: 42255732--42255772 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42255722 CTTCCATCAT
*
42255732 TCAACCATATTAAGTTACTCA
1 TCAACCATATTAAGCTACTCA
*
42255753 TCAACCATTTTAAGGCTACT
1 TCAACCATATTAA-GCTACT
42255773 TATATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (21 bp):
TCAACCATATTAAGCTACTCA
Found at i:42256343 original size:25 final size:25
Alignment explanation
Indices: 42256315--42256400 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
42256305 TATGCTCATA
42256315 CGAGCTATGAATCGGTATGTTCACT
1 CGAGCTATGAATCGGTATGTTCACT
* * *
42256340 CGAGCTGT-AGATCAGCATGCTCTCA-T
1 CGAGCTATGA-ATCGGTATG-T-TCACT
* * *
42256366 -GAGCTATAAATCGGTATGCTCTCT
1 CGAGCTATGAATCGGTATGTTCACT
42256390 CGAGCTATGAA
1 CGAGCTATGAA
42256401 GTATCCGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 36 0.78
26 3 0.07
27 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
CGAGCTATGAATCGGTATGTTCACT
Found at i:42256556 original size:17 final size:18
Alignment explanation
Indices: 42256531--42256564 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42256521 CAACCATGTA
*
42256531 AATTTATAAA-AATTCAC
1 AATTCATAAATAATTCAC
42256548 AATTCATAAATAATTCA
1 AATTCATAAATAATTCA
42256565 ATATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTCATAAATAATTCAC
Found at i:42258263 original size:21 final size:21
Alignment explanation
Indices: 42258237--42258277 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42258227 AGCATATAAA
42258237 TTATAACTCTTAATTATTTTT
1 TTATAACTCTTAATTATTTTT
* *
42258258 TTATAATTTTTAATTATTTT
1 TTATAACTCTTAATTATTTT
42258278 CCAAAGTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATAACTCTTAATTATTTTT
Found at i:42258854 original size:51 final size:50
Alignment explanation
Indices: 42258792--42258979 Score: 195
Period size: 51 Copynumber: 3.7 Consensus size: 50
42258782 ATACCCGGTT
* *
42258792 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATA
* * * *
42258843 AACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCC-AGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGA-TA
* * * * *
42258894 CGCATAGTAGCCTG-ACATAGTACAACACATGCGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATA
*
42258943 CACATAGTAGCCTGCACATAGTACTGCACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
42258980 TAGTAACTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
48 1 0.01
49 21 0.19
50 37 0.34
51 49 0.45
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATA
Found at i:42258973 original size:100 final size:101
Alignment explanation
Indices: 42258794--42258977 Score: 273
Period size: 100 Copynumber: 1.8 Consensus size: 101
42258784 ACCCGGTTCA
* * * *
42258794 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATAAACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACAACACATGCGACCA-TATCATCCGATAAACATAGTAGCCTGCA
42258859 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* *
42258896 CATAGTAGCCTG-ACATAGTACAACACATGCGACC-TATCATTCCGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACAACACATGCGACCATATCA-TCCGATAAACATAGTAGCCTGCA
*
42258959 CATAGTACTGCACACGTGA
65 CATAGTACTACACACGTGA
42258978 CCTAGTAACT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 4 0.05
100 38 0.51
101 20 0.27
102 12 0.16
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACAACACATGCGACCATATCATCCGATAAACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:42267907 original size:51 final size:50
Alignment explanation
Indices: 42267785--42267969 Score: 230
Period size: 51 Copynumber: 3.7 Consensus size: 50
42267775 CATTCGATAT
* * * *
42267785 ACGTAGTAGCCTTCATATAGTACTACACATGTGATC-AAGTTTTGCGGTCC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTT-CGGTAC
*
42267835 ACGTAGTAGCCTCCACATAGTACTACACACGTGACCAAAGCTTTTCGGTAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTTCGGTAC
* * * * *
42267886 ACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATAC
1 ACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCGGTAC
42267937 ACGTAGTAGCCTTCACATAGTACTACACACGTG
1 ACGTAGTAGCCTTCACATAGTACTACACACGTG
42267970 TTCATCAATA
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 35 0.30
51 77 0.66
52 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (50 bp):
ACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCGGTAC
Found at i:42267915 original size:26 final size:26
Alignment explanation
Indices: 42267883--42267965 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
42267873 AGCTTTTCGG
42267883 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
*
42267909 TACACAT-GT-GACCATT-ATTTA-T-C
1 TACACATAGTAG-CC-TTCACTTAGTAC
* *
42267932 GATACACGTAGTAGCCTTCACATAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
42267960 TACACA
1 TACACA
42267966 CGTGTTCATC
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 16 0.37
26 21 0.49
27 2 0.05
28 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:42277041 original size:37 final size:37
Alignment explanation
Indices: 42276991--42277064 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
42276981 CACTAACTCG
* *
42276991 TAAATGGTCTAATTACCATGTAAGGATCTCCAATTTA
1 TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
42277028 TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
1 TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
42277065 AAGTTCTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (37 bp):
TAAATGGTCTAATTACCATATAAGGACCTCCAATTTA
Found at i:42279787 original size:14 final size:14
Alignment explanation
Indices: 42279751--42279787 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
42279741 TAGAATTGGG
42279751 AATTTAGAATAAAA
1 AATTTAGAATAAAA
**
42279765 AATCGAGAATAAAA
1 AATTTAGAATAAAA
42279779 AATTTAGAA
1 AATTTAGAA
42279788 CAATAAGTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.11, T:0.24
Consensus pattern (14 bp):
AATTTAGAATAAAA
Found at i:42281752 original size:27 final size:27
Alignment explanation
Indices: 42281722--42281790 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
42281712 AAAAAAGTTT
*
42281722 AAAAGTTTTGGGGGAAAGCAAAAGGAA
1 AAAAGTTTTGGGGGAAAGCAAAAGAAA
* *
42281749 AAAAGTTTTTGGGGAAAAGTAAAAGAAA
1 AAAAG-TTTTGGGGGAAAGCAAAAGAAA
*
42281777 AAAAATTTTGGGGG
1 AAAAGTTTTGGGGG
42281791 GTTTGGGGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 13 0.36
28 23 0.64
ACGTcount: A:0.48, C:0.01, G:0.30, T:0.20
Consensus pattern (27 bp):
AAAAGTTTTGGGGGAAAGCAAAAGAAA
Found at i:42281827 original size:20 final size:20
Alignment explanation
Indices: 42281792--42281846 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
42281782 TTTTGGGGGG
42281792 TTTG-GGGGAAGT-AAAATT
1 TTTGAGGGGAAGTAAAAATT
42281810 TTTGAGGGGAAGTAAAAATT
1 TTTGAGGGGAAGTAAAAATT
* *
42281830 TTGGAGTGGAAGTAAAA
1 TTTGAGGGGAAGTAAAA
42281847 GAAAAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 21 0.64
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.29
Consensus pattern (20 bp):
TTTGAGGGGAAGTAAAAATT
Found at i:42284270 original size:29 final size:29
Alignment explanation
Indices: 42284227--42284283 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
42284217 TTACGTCAAC
* *
42284227 TATGGTTAAATTTTAATTTTATAAAATTG
1 TATGGTAAAAATTTAATTTTATAAAATTG
42284256 TATGGTAAAAATTTAATTTTATAAAATT
1 TATGGTAAAAATTTAATTTTATAAAATT
42284284 AATCAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (29 bp):
TATGGTAAAAATTTAATTTTATAAAATTG
Found at i:42284283 original size:15 final size:15
Alignment explanation
Indices: 42284233--42284283 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
42284223 CAACTATGGT
*
42284233 TAAATTTTAATTTTA
1 TAAAATTTAATTTTA
**
42284248 TAAAATTGT-ATGGTA
1 TAAAATT-TAATTTTA
42284263 -AAAATTTAATTTTA
1 TAAAATTTAATTTTA
42284277 TAAAATT
1 TAAAATT
42284284 AATCAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
TAAAATTTAATTTTA
Found at i:42291220 original size:2 final size:2
Alignment explanation
Indices: 42291213--42291239 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42291203 CTTGCTCTTT
42291213 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42291240 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42292012 original size:22 final size:22
Alignment explanation
Indices: 42291984--42292034 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
42291974 CTCTCTAATC
42291984 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
42292006 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
42292028 CTCTCAA
1 CTCTCAA
42292035 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:42292055 original size:40 final size:41
Alignment explanation
Indices: 42292009--42292098 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
42291999 CAAAATTCTC
42292009 TCAATTTCCTTCCAAAA-TTCTCTCAAACCCATATTTAATT
1 TCAATTTCCTTCCAAAATTTCTCTCAAACCCATATTTAATT
*
42292049 TCAATTTCCTTCCAAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTTCCAAAATTTCTCTCAAACCCATATTTAATT
42292090 TCAATTTCC
1 TCAATTTCC
42292099 CCTAAGTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 17 0.35
41 31 0.65
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (41 bp):
TCAATTTCCTTCCAAAATTTCTCTCAAACCCATATTTAATT
Found at i:42292146 original size:31 final size:31
Alignment explanation
Indices: 42292110--42292174 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
42292100 CTAAGTTTCA
42292110 TTTTT-AAAATAATTTTAAATTTTTTTTATAT
1 TTTTTAAAAATAATTTTAAA-TTTTTTTATAT
42292141 TTTTTAAAAATAATTTTAAATTTTTTTATAT
1 TTTTTAAAAATAATTTTAAATTTTTTTATAT
42292172 TTT
1 TTT
42292175 CATCAATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 19 0.58
32 14 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTAAAAATAATTTTAAATTTTTTTATAT
Done.