Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013384.1 Corchorus capsularis cultivar CVL-1 contig13405, whole genome shotgun sequence
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: 45360
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:144 original size:78 final size:77
Alignment explanation
Indices: 1--212 Score: 321
Period size: 78 Copynumber: 2.8 Consensus size: 77
* *
1 CTATTTTTATTTAATTAAATATAATAT-CTT-T-A-TAAT-TATTTT--ATTTTACTATTTTACT
1 CTATTTTTATATAATTAAATATAATATCCTTATAACTATTATATTTTACATTTTACTATTTTACT
59 CAACTAAAAACT
66 CAACTAAAAACT
*
71 CTATTTTTATATAATTAAATCTAATATCCTTATAACTATTATATTTTACCATTTTACTATTTTAC
1 CTATTTTTATATAATTAAATATAATATCCTTATAACTATTATATTTTA-CATTTTACTATTTTAC
136 TCAACTAAAAACT
65 TCAACTAAAAACT
*
149 CAATTTTTATATAATTAAATATAATATCCTTATAACTATTATATTTTACAATTTTACTATTTTA
1 CTATTTTTATATAATTAAATATAATATCCTTATAACTATTATATTTTAC-ATTTTACTATTTTA
213 GTTAAAAAAA
Statistics
Matches: 128, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
70 25 0.20
71 3 0.02
72 1 0.01
73 1 0.01
74 3 0.02
75 6 0.05
77 1 0.01
78 88 0.69
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (77 bp):
CTATTTTTATATAATTAAATATAATATCCTTATAACTATTATATTTTACATTTTACTATTTTACT
CAACTAAAAACT
Found at i:1828 original size:29 final size:31
Alignment explanation
Indices: 1770--1833 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
1760 AACTTTATGT
*
1770 TTTCCGATTGTACCCTTATTTTTAAAACATA
1 TTTCCAATTGTACCCTTATTTTTAAAACATA
*
1801 TTTCCAATTGTATCCTT-TTTTT-AAACATA
1 TTTCCAATTGTACCCTTATTTTTAAAACATA
1830 TTTC
1 TTTC
1834 AAAATTGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 11 0.35
30 5 0.16
31 15 0.48
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTCCAATTGTACCCTTATTTTTAAAACATA
Found at i:2167 original size:22 final size:22
Alignment explanation
Indices: 2155--2217 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
2145 TCCATGGGGA
*
2155 GGTTACCAAAATTCCATAGTGT
1 GGTTACCAAAATTCCATAGAGT
*
2177 GGTTACCAAAATTTCATAGAGT
1 GGTTACCAAAATTCCATAGAGT
*
2199 GGTTACCAAAATTTCATAG
1 GGTTACCAAAATTCCATAG
2218 GATCGGCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (22 bp):
GGTTACCAAAATTCCATAGAGT
Found at i:2269 original size:22 final size:22
Alignment explanation
Indices: 2110--2271 Score: 78
Period size: 22 Copynumber: 7.3 Consensus size: 22
2100 TGTCTCTATG
* * *
2110 TGGTTATCAAATTTTCATAAGA
1 TGGTTATTAAAATTTCATAGGA
* * * *
2132 AGGTTATTATAATTCCATGGGGA
1 TGGTTATTAAAATTTCAT-AGGA
** *
2155 -GGTTACCAAAATTCCATAGTG-
1 TGGTTATTAAAATTTCATAG-GA
**
2176 TGGTTACCAAAATTTCATA-GA
1 TGGTTATTAAAATTTCATAGGA
**
2197 GTGGTTACCAAAATTTCATAGGA
1 -TGGTTATTAAAATTTCATAGGA
* * *
2220 TCGGCTTATTAAAATTTCTTACGT
1 T-GG-TTATTAAAATTTCATAGGA
* * *
2244 TGGTTTTTGAAATTTCATAGGG
1 TGGTTATTAAAATTTCATAGGA
2266 TGGTTA
1 TGGTTA
2272 ACTATCACAA
Statistics
Matches: 109, Mismatches: 23, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 84 0.77
23 8 0.07
24 15 0.14
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (22 bp):
TGGTTATTAAAATTTCATAGGA
Found at i:2439 original size:22 final size:22
Alignment explanation
Indices: 2391--2633 Score: 119
Period size: 22 Copynumber: 10.9 Consensus size: 22
2381 CTTCATCGGG
*
2391 AGGTTATCAAAATTTTATAATG-
1 AGGTTATCAAAATTTCAT-ATGA
*
2413 TGGTTATCAAAATTTCATATGA
1 AGGTTATCAAAATTTCATATGA
*
2435 AGGTTAT-AAAAGTCTCAATTTCAT-A
1 AGGTTATCAAAA-TTTC-A--T-ATGA
* * *
2460 AGGAGTACCAAAATTTGATA-GA
1 AGG-TTATCAAAATTTCATATGA
*
2482 AGGTTATC-AAATCTCATA-G-
1 AGGTTATCAAAATTTCATATGA
* *
2501 AGTGATTATCGAAATTTCATAAAGA
1 AG-G-TTATCAAAATTTCAT-ATGA
*
2526 TATGATTATCAAAATTT-ATATGA
1 -A-GGTTATCAAAATTTCATATGA
*
2549 AGATTATCAAAATTTCATAGTG-
1 AGGTTATCAAAATTTCATA-TGA
** * * *
2571 TTGTTATCAAAATTTCAAAGGG
1 AGGTTATCAAAATTTCATATGA
*
2593 AGGTTATCAAAATTACATAATG-
1 AGGTTATCAAAATTTCAT-ATGA
* *
2615 TGATTATCAAAATTTCATA
1 AGGTTATCAAAATTTCATA
2634 AAGGGGTCAA
Statistics
Matches: 171, Mismatches: 29, Indels: 43
0.70 0.12 0.18
Matches are distributed among these distances:
19 2 0.01
20 10 0.06
21 31 0.18
22 86 0.50
23 10 0.06
24 3 0.02
25 17 0.10
26 7 0.04
27 5 0.03
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
AGGTTATCAAAATTTCATATGA
Found at i:2548 original size:18 final size:19
Alignment explanation
Indices: 2525--2563 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
2515 TTTCATAAAG
2525 ATAT-GATTATCAAAATTT
1 ATATAGATTATCAAAATTT
2543 ATATGAAGATTATCAAAATTT
1 ATAT--AGATTATCAAAATTT
2564 CATAGTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
ATATAGATTATCAAAATTT
Found at i:2622 original size:44 final size:45
Alignment explanation
Indices: 2506--2721 Score: 178
Period size: 44 Copynumber: 4.9 Consensus size: 45
2496 CATAGAGTGA
* * * * *
2506 TTATCGAAATTTCATAAAGATATGATTATCAAAATTT-ATATGAAGA
1 TTATCAAAATTTCATAATG--ATGATTATCAAAATTTCATAAGGAGG
* *
2552 TTATCAAAATTTCATAGTGTTG-TTATCAAAATTTCA-AAGGGAGG
1 TTATCAAAATTTCATAATGATGATTATCAAAATTTCATAA-GGAGG
*
2596 TTATCAAAATTACATAATG-TGATTATCAAAATTTCATAAAGG-GG
1 TTATCAAAATTTCATAATGATGATTATCAAAATTTCAT-AAGGAGG
* * * * * *
2640 TCAACAAAATTTTATAAAGATG-TTATAAAAATTTCATAAAGAGG
1 TTATCAAAATTTCATAATGATGATTATCAAAATTTCATAAGGAGG
* * *
2684 TTATCAAATTTTCAAAATG-TGA-TAACAAAAATTTCATA
1 TTATCAAAATTTCATAATGATGATTATC-AAAATTTCATA
2722 GTGGTATTTC
Statistics
Matches: 137, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
43 22 0.16
44 93 0.68
45 4 0.03
46 18 0.13
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (45 bp):
TTATCAAAATTTCATAATGATGATTATCAAAATTTCATAAGGAGG
Found at i:2634 original size:22 final size:22
Alignment explanation
Indices: 2485--2721 Score: 132
Period size: 22 Copynumber: 10.7 Consensus size: 22
2475 TGATAGAAGG
*
2485 TTATC-AAATCTCATAGA-GTGA
1 TTATCAAAATTTCATA-ATGTGA
* *
2506 TTATCGAAATTTCATAAAGATATGA
1 TTATCAAAATTTCAT--A-ATGTGA
*
2531 TTATCAAAATTT-AT-ATGAAGA
1 TTATCAAAATTTCATAATG-TGA
*
2552 TTATCAAAATTTCATAGTGTTG-
1 TTATCAAAATTTCATAATG-TGA
*
2574 TTATCAAAATTTCA-AA-GGGA
1 TTATCAAAATTTCATAATGTGA
*
2594 GGTTATCAAAATTACATAATGTGA
1 --TTATCAAAATTTCATAATGTGA
* * *
2618 TTATCAAAATTTCATAAAGGGG
1 TTATCAAAATTTCATAATGTGA
* * * *
2640 TCAACAAAATTTTATAAAGATG-
1 TTATCAAAATTTCATAATG-TGA
* * * *
2662 TTATAAAAATTTCATAAAGAGG
1 TTATCAAAATTTCATAATGTGA
* *
2684 TTATCAAATTTTCAAAATGTGA
1 TTATCAAAATTTCATAATGTGA
*
2706 -TAACAAAAATTTCATA
1 TTATC-AAAATTTCATA
2722 GTGGTATTTC
Statistics
Matches: 167, Mismatches: 34, Indels: 29
0.73 0.15 0.13
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 24 0.14
22 111 0.66
23 6 0.04
24 8 0.05
25 14 0.08
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TTATCAAAATTTCATAATGTGA
Found at i:2650 original size:88 final size:88
Alignment explanation
Indices: 2556--2721 Score: 210
Period size: 88 Copynumber: 1.9 Consensus size: 88
2546 TGAAGATTAT
** * * * *
2556 CAAAATTTCATAGTGTTGTTATCAAAATTTCA-AAGGGAGGTTATCAAAATTACATAATGTGATT
1 CAAAATTTCATAAAGATGTTATAAAAATTTCATAA-AGAGGTTATCAAAATTACAAAATGTGA-T
*
2620 ATC-AAAATTTCATAAAGGGGTCAA
64 AACAAAAATTTCATAAAGGGGTCAA
* * *
2644 CAAAATTTTATAAAGATGTTATAAAAATTTCATAAAGAGGTTATCAAATTTTCAAAATGTGATAA
1 CAAAATTTCATAAAGATGTTATAAAAATTTCATAAAGAGGTTATCAAAATTACAAAATGTGATAA
2709 CAAAAATTTCATA
66 CAAAAATTTCATA
2722 GTGGTATTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
87 3 0.05
88 61 0.92
89 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (88 bp):
CAAAATTTCATAAAGATGTTATAAAAATTTCATAAAGAGGTTATCAAAATTACAAAATGTGATAA
CAAAAATTTCATAAAGGGGTCAA
Found at i:2833 original size:19 final size:19
Alignment explanation
Indices: 2803--2869 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2793 TGATGGAGTA
2803 ATCAAAATTTCAGGGAGGAT
1 ATCAAAA-TTCAGGGAGGAT
*
2823 ACCAAAATTCAGGGAGGAT
1 ATCAAAATTCAGGGAGGAT
** *
2842 ATTGAAATTCAGTGAGGAT
1 ATCAAAATTCAGGGAGGAT
2861 ATCAAAATT
1 ATCAAAATT
2870 TCATATGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.25
Consensus pattern (19 bp):
ATCAAAATTCAGGGAGGAT
Found at i:2886 original size:22 final size:22
Alignment explanation
Indices: 2860--3308 Score: 135
Period size: 22 Copynumber: 20.5 Consensus size: 22
2850 TCAGTGAGGA
2860 TATCAAAATTTCATATGAAGGT
1 TATCAAAATTTCATATGAAGGT
* **
2882 TATCAAATTTTCATAGTTTA-GT
1 TATCAAAATTTCATA-TGAAGGT
* * *
2904 TTTCAAAATTTCATAAGAGGGT
1 TATCAAAATTTCATATGAAGGT
* *
2926 TATCAAAATTTCATA-GTATGT
1 TATCAAAATTTCATATGAAGGT
* * * * *
2947 AGATTAAAATTTCATAGGGAGAT
1 -TATCAAAATTTCATATGAAGGT
*
2970 TAACAAAATTTCATAATG-AGGT
1 TATCAAAATTTCAT-ATGAAGGT
* ** *
2992 AATCAAAAAATCATA-GAGAGTT
1 TATCAAAATTTCATATGA-AGGT
*
3014 TATCAAAATTT-GTAT--A-GT
1 TATCAAAATTTCATATGAAGGT
* * * *
3032 TATCAAGATTTCAAAAGAAAGT
1 TATCAAAATTTCATATGAAGGT
* * *
3054 TATCAAAATTTTATAGGGAGGTT
1 TATCAAAATTTCATATGAAGG-T
* * * *
3077 TATTAAAATTTTATAGGAAGATT
1 TATCAAAATTTCATATGAAG-GT
* *
3100 TATCAAAATCTCATA-GCGAGGT
1 TATCAAAATTTCATATG-AAGGT
* * *
3122 TATCACAATTTCATAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
* * * *
3144 TATCAAAATTTTAAAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
*
3166 TA-CTAACAA-TTCATATGGAGGT
1 TATC-AA-AATTTCATATGAAGGT
** * *
3188 T-TTTAAATTT-TTATAAAGTGGT
1 TATCAAAATTTCATATGAA--GGT
* * *
3210 TATCAATATATCATATGGAGGT
1 TATCAAAATTTCATATGAAGGT
* * * **
3232 TATTAACATCTCATAGTGTTGGT
1 TATCAAAATTTCATA-TGAAGGT
3255 TATCAAAATTTCAT-TGGGAA-GT
1 TATCAAAATTTCATAT--GAAGGT
3277 TATCAAAATTTCATATTG-AGGT
1 TATCAAAATTTCATA-TGAAGGT
3299 CT-TCAAAATT
1 -TATCAAAATT
3309 CCTAAGGGAG
Statistics
Matches: 310, Mismatches: 84, Indels: 66
0.67 0.18 0.14
Matches are distributed among these distances:
18 11 0.04
19 2 0.01
20 7 0.02
21 15 0.05
22 203 0.65
23 66 0.21
24 6 0.02
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
TATCAAAATTTCATATGAAGGT
Found at i:3084 original size:23 final size:23
Alignment explanation
Indices: 3053--3156 Score: 95
Period size: 23 Copynumber: 4.6 Consensus size: 23
3043 CAAAAGAAAG
3053 TTATCAAAATTTTATAGGGAGGT
1 TTATCAAAATTTTATAGGGAGGT
* * *
3076 TTATTAAAATTTTATAGGAAGAT
1 TTATCAAAATTTTATAGGGAGGT
* * *
3099 TTATCAAAATCTCATAGCGAGG-
1 TTATCAAAATTTTATAGGGAGGT
* * * * *
3121 TTATCACAATTTCATAGTG-TGA
1 TTATCAAAATTTTATAGGGAGGT
3143 TTATCAAAATTTTA
1 TTATCAAAATTTTA
3157 AAGTGTGATT
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
21 1 0.02
22 28 0.43
23 36 0.55
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
TTATCAAAATTTTATAGGGAGGT
Found at i:3291 original size:45 final size:45
Alignment explanation
Indices: 3206--3291 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
3196 TTTTATAAAG
* * * *
3206 TGGTTATCAATATATCATATGGAGGTTATTAACATCTCATAGTGT
1 TGGTTATCAAAATATCATATGGAAGTTATCAAAATCTCATAGTGT
* *
3251 TGGTTATCAAAATTTCAT-TGGGAAGTTATCAAAATTTCATA
1 TGGTTATCAAAATATCATAT-GGAAGTTATCAAAATCTCATA
3292 TTGAGGTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.03
45 33 0.97
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (45 bp):
TGGTTATCAAAATATCATATGGAAGTTATCAAAATCTCATAGTGT
Found at i:3755 original size:2 final size:2
Alignment explanation
Indices: 3750--3788 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3740 ACTAAGTGTG
3750 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
3789 TCTAGCTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9468 original size:22 final size:22
Alignment explanation
Indices: 9438--9977 Score: 157
Period size: 22 Copynumber: 24.7 Consensus size: 22
9428 ATGATCCCAT
9438 TATGAAAATTTTGATAACCTTCC
1 TATG-AAATTTTGATAACCTTCC
* *** *
9461 TATGAAATTTTAATAATGATAC
1 TATGAAATTTTGATAACCTTCC
* * * * **
9483 TATGGAATTTCGAGAACTTTTT
1 TATGAAATTTTGATAACCTTCC
** *
9505 TAT-AAATTTTTTTTAACCTTCT
1 TATGAAA-TTTTGATAACCTTCC
* * **
9527 TACGAAATTTTGTTAACCACCC
1 TATGAAATTTTGATAACCTTCC
* * *
9549 TAAGGAATTTTGA-AGACC-TCAA
1 TATGAAATTTTGATA-ACCTTC-C
9571 TATGAAATTTTGATAA-CTTCCC
1 TATGAAATTTTGATAACCTT-CC
* **
9593 AATGAAATTTTGATAACCAACAC
1 TATGAAATTTTGATAACCTTC-C
* *
9616 TATGAGATGTTGATAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* * * *
9637 ATATGATATATTGATAACC-ACGT
1 -TATGAAATTTTGATAACCTTC-C
* * * * *
9660 TATGAAAATTTAAAAACCTACA
1 TATGAAATTTTGATAACCTTCC
* * **
9682 TATG-AATTGTT-AGTAATCATAA
1 TATGAAATT-TTGA-TAACCTTCC
* * *
9704 TCTGAAATTTTGATAATC-ACAC
1 TATGAAATTTTGATAACCTTC-C
* *
9726 TATAAAATTGTGATAACC-TCGC
1 TATGAAATTTTGATAACCTTC-C
*
9748 TATGAAATTTTGATAAATTCTTCC
1 TATGAAATTTTGAT-AA-CCTTCC
* * *
9772 CATAAAATTTTGATAAACCTCCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
9795 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTTCC
* *
9817 TATGAAATCTTGACAA-----C
1 TATGAAATTTTGATAACCTTCC
* *
9834 TA-CAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAACCTTCC
** *
9855 TATGATTTTTTGATAACC-TCAT
1 TATGAAATTTTGATAACCTTC-C
* * * *
9877 TATGAAATTTAGTTAATCTCCC
1 TATGAAATTTTGATAACCTTCC
* **
9899 TATGAAATTTTGATAACCCTAT
1 TATGAAATTTTGATAACCTTCC
* **
9921 TATGAAATTTTGA-AAACTAAAC
1 TATGAAATTTTGATAACCT-TCC
*
9943 TATGAAATTTTGATATCC-TCC
1 TATGAAATTTTGATAACCTTCC
*
9964 -CTGAAATTTTGATA
1 TATGAAATTTTGATA
9978 TCATCCCAAA
Statistics
Matches: 374, Mismatches: 113, Indels: 63
0.68 0.21 0.11
Matches are distributed among these distances:
16 10 0.03
17 2 0.01
20 13 0.03
21 18 0.05
22 257 0.69
23 55 0.15
24 17 0.05
25 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCC
Found at i:9629 original size:45 final size:45
Alignment explanation
Indices: 9571--9656 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
9561 AAGACCTCAA
* * *
9571 TATGAAATTTTGATAACTTCCCA-ATGAAATTTTGATAACCAACAC
1 TATGAAATGTTGATAACCT-CCATATGAAATATTGATAACCAACAC
* *
9616 TATGAGATGTTGATAACCTCCATATGATATATTGATAACCA
1 TATGAAATGTTGATAACCTCCATATGAAATATTGATAACCA
9657 CGTTATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.09
45 32 0.91
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (45 bp):
TATGAAATGTTGATAACCTCCATATGAAATATTGATAACCAACAC
Found at i:9970 original size:20 final size:20
Alignment explanation
Indices: 9945--9995 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9935 AACTAAACTA
*
9945 TGAAATTTTGATATCCTCCC
1 TGAAATTTTGATATCATCCC
9965 TGAAATTTTGATATCATCCC
1 TGAAATTTTGATATCATCCC
**
9985 AAAAATTTTGA
1 TGAAATTTTGA
9996 CTACTTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (20 bp):
TGAAATTTTGATATCATCCC
Found at i:10106 original size:22 final size:23
Alignment explanation
Indices: 10080--10155 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 23
10070 AATATCACTA
10080 TGAAATTTTTG-TAATCACATTT-
1 TGAAATTTTTGATAATCAC-TTTG
* *
10102 TGAAA-ATTTGATAATCTCTTTG
1 TGAAATTTTTGATAATCACTTTG
* * *
10124 TGAAA-TTTTGATAACCTCTTTA
1 TGAAATTTTTGATAATCACTTTG
10146 T-AAATTTTTG
1 TGAAATTTTTG
10156 TTGACCCCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
21 10 0.22
22 36 0.78
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (23 bp):
TGAAATTTTTGATAATCACTTTG
Found at i:10218 original size:22 final size:21
Alignment explanation
Indices: 10165--10493 Score: 118
Period size: 22 Copynumber: 14.8 Consensus size: 21
10155 GTTGACCCCT
*
10165 CTATGAAATTCTGATAATCA-C
1 CTATGAAATTTTGATAA-CATC
* * *
10186 ATTATGTAATTTTGATAACCTC
1 -CTATGAAATTTTGATAACATC
* *
10208 GCTTTGAAATTTTGATAACAAC
1 -CTATGAAATTTTGATAACATC
*
10230 ACTATGAAATTTTGATAATCTTC
1 -CTATGAAATTTTGATAA-CATC
10253 CTAT-AAATTTTGATAATCTGATC
1 CTATGAAATTTTGATAA-C--ATC
*
10276 TCTATGAAATTTCGATAATCA-C
1 -CTATGAAATTTTGATAA-CATC
* * *
10298 TCTATGAGA-TTTGATAACCTT
1 -CTATGAAATTTTGATAACATC
* *
10319 CTATCAAATTTTGGT-AC-TC
1 CTATGAAATTTTGATAACATC
* * *
10338 CTTATGAAATTGAGACTTTTATGACCTTC
1 C-TATGAAA-T-----TTTGAT-AACATC
*
10367 ATATGAAATTTTGATAACCA-C
1 CTATGAAATTTTGATAA-CATC
* *
10388 ACTATAAAATTTTGATAACCTCC
1 -CTATGAAATTTTGATAACAT-C
* * *
10411 CCATGAAATATT-AGTAACCTC
1 CTATGAAATTTTGA-TAACATC
* *
10432 CTAATGAAATTTTGTTAACAAC
1 CT-ATGAAATTTTGATAACATC
*
10454 ACTATGAAATTCTT-ATAACCTC
1 -CTATGAAATT-TTGATAACATC
*
10476 GCTATGACATTTTGATAA
1 -CTATGAAATTTTGATAA
10494 TCTCTTTGAT
Statistics
Matches: 231, Mismatches: 48, Indels: 56
0.69 0.14 0.17
Matches are distributed among these distances:
19 2 0.01
20 15 0.06
21 36 0.16
22 136 0.59
23 10 0.04
24 4 0.02
25 13 0.06
26 4 0.02
27 1 0.00
28 8 0.03
29 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
CTATGAAATTTTGATAACATC
Found at i:10221 original size:66 final size:65
Alignment explanation
Indices: 10105--10249 Score: 150
Period size: 66 Copynumber: 2.2 Consensus size: 65
10095 CACATTTTGA
* * * * * * ** *
10105 AAATTTGATAATCTCTTTGTGAAATTTTGATAACCTCTTTATAAATTTTTGTTGACCCCTCTATG
1 AAATTTGATAATCACATTATGAAATTTTGATAACCTCTTTAGAAATTTTTGATAACAACACTATG
*
10170 AAATTCTGATAATCACATTATGTAATTTTGATAACCTCGCTTT-GAAA-TTTTGATAACAACACT
1 AAATT-TGATAATCACATTATGAAATTTTGATAACCT--CTTTAGAAATTTTTGATAACAACACT
10233 ATG
63 ATG
10236 AAATTTTGATAATC
1 AAA-TTTGATAATC
10250 TTCCTATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
65 5 0.08
66 52 0.79
67 5 0.08
68 4 0.06
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (65 bp):
AAATTTGATAATCACATTATGAAATTTTGATAACCTCTTTAGAAATTTTTGATAACAACACTATG
Found at i:10243 original size:88 final size:88
Alignment explanation
Indices: 10077--10242 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 88
10067 AAAAATATCA
* * * * **
10077 CTATGAAATTTTTGTAATCACATTTTGAAAATTTGATAATCTCTTTGTGAAATTTTGATAACCTC
1 CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTCCTTGTGAAATTTTGATAACAAC
**
10142 TTTATAAATTTTTGTTGACCCCT
66 ACTATAAATTTTTGTTGACCCCT
* *
10165 CTATGAAA-TTCTGATAATCACATTATGTAATTTTGATAACCTCGCTT-TGAAATTTTGATAACA
1 CTATGAAATTTCTG-TAATCACATTATGAAAATTTGATAACCTC-CTTGTGAAATTTTGATAACA
10228 ACACTATGAAATTTT
64 ACACTAT-AAATTTT
10243 GATAATCTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
87 4 0.06
88 52 0.80
89 9 0.14
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (88 bp):
CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTCCTTGTGAAATTTTGATAACAAC
ACTATAAATTTTTGTTGACCCCT
Found at i:10593 original size:24 final size:22
Alignment explanation
Indices: 10529--10616 Score: 88
Period size: 22 Copynumber: 3.9 Consensus size: 22
10519 TTGTGATAAT
* *
10529 TAACCACCCTATGAAATTTCAA
1 TAACCAACCTATGAAATTTTAA
*
10551 TAACCAACCTAAGAAATTTTAA
1 TAACCAACCTATGAAATTTTAA
* **
10573 TAACCTAATCTTATGAAATTTTGG
1 TAACC-AA-CCTATGAAATTTTAA
10597 TAACC-ACACTATGAAATTTT
1 TAACCAAC-CTATGAAATTTT
10617 GGTAACCACA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
21 1 0.02
22 36 0.65
23 2 0.04
24 16 0.29
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (22 bp):
TAACCAACCTATGAAATTTTAA
Found at i:10601 original size:46 final size:44
Alignment explanation
Indices: 10538--10739 Score: 149
Period size: 46 Copynumber: 4.5 Consensus size: 44
10528 TTAACCACCC
**
10538 TATGAAATTTCAATAACCAACCTAAGAAATTTTAATAACCTAATCT
1 TATGAAATTTTGATAACC-ACCTAAGAAATTTTAATAACC-AATCT
* * ** *
10584 TATGAAATTTTGGTAACCACACTATGAAATTTTGGTAACCACAAT-A
1 TATGAAATTTTGATAACCAC-CTAAGAAATTTTAATAA-C-CAATCT
** * **
10630 TATGAAATTTTGATAACTTGCATAAGAAATTTTGGTAACCACA-CT
1 TATGAAATTTTGATAAC-CACCTAAGAAATTTTAATAACCA-ATCT
* * * *
10675 ATATGGAATTTTGATAACCTCCTCATGAAATTATAATAA-CAATCT
1 -TATGAAATTTTGATAACCACCT-AAGAAATTTTAATAACCAATCT
*
10720 TATGGAATTTTGATAACCAC
1 TATGAAATTTTGATAACCAC
10740 ATAGAGACAA
Statistics
Matches: 125, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
44 22 0.18
45 10 0.08
46 87 0.70
47 5 0.04
48 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (44 bp):
TATGAAATTTTGATAACCACCTAAGAAATTTTAATAACCAATCT
Found at i:10613 original size:68 final size:66
Alignment explanation
Indices: 10529--10740 Score: 196
Period size: 68 Copynumber: 3.1 Consensus size: 66
10519 TTGTGATAAT
* **
10529 TAACCACCCTATGAAATTTCAATAACCAACCTAAGAAATTTTAATAACCTAATCTTATGAAATTT
1 TAACCACACTATGAAATTTTGATAACC-ACCTAAGAAATTTTAATAA-CTAATCTTATGAAATTT
10594 TGG
64 TGG
* * * * *
10597 TAACCACACTATGAAATTTTGGTAACCACAATATATGAAATTTTGATAACT--TGCATAAGAAAT
1 TAACCACACTATGAAATTTTGATAACCAC-CTA-A-GAAATTTTAATAACTAAT-CTTATGAAAT
10660 TTTGG
62 TTTGG
* * * * *
10665 TAACCACACTATATGGAATTTTGATAACCTCCTCATGAAATTATAATAAC-AATCTTATGGAATT
1 TAACCACAC--TATGAAATTTTGATAACCACCT-AAGAAATTTTAATAACTAATCTTATGAAATT
*
10729 TTGA
63 TTGG
10733 TAACCACA
1 TAACCACA
10741 TAGAGACAAG
Statistics
Matches: 116, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
67 3 0.03
68 78 0.67
69 5 0.04
70 30 0.26
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (66 bp):
TAACCACACTATGAAATTTTGATAACCACCTAAGAAATTTTAATAACTAATCTTATGAAATTTTG
G
Found at i:10638 original size:24 final size:23
Alignment explanation
Indices: 10584--10693 Score: 118
Period size: 22 Copynumber: 4.8 Consensus size: 23
10574 AACCTAATCT
*
10584 TATGAAATTTTGGTAACCACA-C
1 TATGAAATTTTGGTAACCACATA
10606 TATGAAATTTTGGTAACCACAATA
1 TATGAAATTTTGGTAACCAC-ATA
* **
10630 TATGAAATTTTGATAACTTGCATA
1 TATGAAATTTTGGTAAC-CACATA
10654 -A-GAAATTTTGGTAACCACACTA
1 TATGAAATTTTGGTAACCACA-TA
* *
10676 TATGGAATTTTGATAACC
1 TATGAAATTTTGGTAACC
10694 TCCTCATGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.03
22 35 0.48
23 3 0.04
24 32 0.44
25 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (23 bp):
TATGAAATTTTGGTAACCACATA
Found at i:10735 original size:22 final size:22
Alignment explanation
Indices: 10676--10736 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
10666 AACCACACTA
*
10676 TATGGAATTTTGATAACCTCCT
1 TATGGAATTTTGATAACATCCT
* * * *
10698 CATGAAATTATAATAACAAT-CT
1 TATGGAATTTTGATAAC-ATCCT
10720 TATGGAATTTTGATAAC
1 TATGGAATTTTGATAAC
10737 CACATAGAGA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
TATGGAATTTTGATAACATCCT
Found at i:10928 original size:19 final size:19
Alignment explanation
Indices: 10897--10934 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10887 TATTGACATT
10897 TAAAAATTGAAATTAAAAA
1 TAAAAATTGAAATTAAAAA
10916 TAAAATATT-AAATTAAAAA
1 TAAAA-ATTGAAATTAAAAA
10935 AATAATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
TAAAAATTGAAATTAAAAA
Found at i:10941 original size:19 final size:19
Alignment explanation
Indices: 10906--10946 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10896 TTAAAAATTG
*
10906 AAATTAAAAATAAAATATT
1 AAATTAAAAATAAAATAGT
10925 AAATTAAAAA-AATAATAGT
1 AAATTAAAAATAA-AATAGT
10944 AAA
1 AAA
10947 GGAAATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAATTAAAAATAAAATAGT
Found at i:17350 original size:1 final size:1
Alignment explanation
Indices: 17344--17380 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
17334 ATGGGAGTTC
**
17344 TTTTTTTTTTCCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17381 GCTACAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:19465 original size:1 final size:1
Alignment explanation
Indices: 19417--19446 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
19407 TACATGTAGC
19417 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19447 CTGTAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21085 original size:78 final size:78
Alignment explanation
Indices: 20995--21229 Score: 443
Period size: 78 Copynumber: 3.0 Consensus size: 78
20985 AGGGGCTGCC
*
20995 TGATTTCAATTTCAAATTTGCTAAACTCATTGTGTCTGACTCTGATGAAGACCTCCAACTGATTG
1 TGATTTCGATTTCAAATTTGCTAAACTCATTGTGTCTGACTCTGATGAAGACCTCCAACTGATTG
21060 GTCATGGTGAGAA
66 GTCATGGTGAGAA
21073 TGATTTCGATTTCAAATTTGCTAAACTCATTGTGTCTGACTCTGATGAAGACCTCCAACTGATTG
1 TGATTTCGATTTCAAATTTGCTAAACTCATTGTGTCTGACTCTGATGAAGACCTCCAACTGATTG
21138 GTCATGGTGAGAA
66 GTCATGGTGAGAA
* *
21151 TGATTTCGATTTCAAATTTGCTAAACTCACTGTGTCTGACTCTGATGGAGACCTCCAACTGATTG
1 TGATTTCGATTTCAAATTTGCTAAACTCATTGTGTCTGACTCTGATGAAGACCTCCAACTGATTG
21216 GTCATGGTGAGAA
66 GTCATGGTGAGAA
21229 T
1 T
21230 TTGAGACTCC
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 154 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (78 bp):
TGATTTCGATTTCAAATTTGCTAAACTCATTGTGTCTGACTCTGATGAAGACCTCCAACTGATTG
GTCATGGTGAGAA
Found at i:32222 original size:85 final size:86
Alignment explanation
Indices: 32091--32264 Score: 316
Period size: 85 Copynumber: 2.0 Consensus size: 86
32081 CCTAAAAAAA
32091 TAATCAATTAAGAACTTGATTATTATAAATAAAATGAAAATATATAAAA-AAGAATG-TTAGATT
1 TAATCAATTAAGAACTTGATTATTATAAATAAAATGAAAATATATAAAAGAA-AATGCTTAGATT
32154 TTACATTTAATAAAATATTATT
65 TTACATTTAATAAAATATTATT
32176 TAATCAATTAAGAACTTGATTATTATAAATAAAATGAAAATATATAAAAGAAAATGTCTTAGATT
1 TAATCAATTAAGAACTTGATTATTATAAATAAAATGAAAATATATAAAAGAAAATG-CTTAGATT
32241 TTACATTTAATAAAATATTATT
65 TTACATTTAATAAAATATTATT
32263 TA
1 TA
32265 TACAGATCTC
Statistics
Matches: 86, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
85 53 0.62
86 2 0.02
87 31 0.36
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (86 bp):
TAATCAATTAAGAACTTGATTATTATAAATAAAATGAAAATATATAAAAGAAAATGCTTAGATTT
TACATTTAATAAAATATTATT
Found at i:32409 original size:13 final size:13
Alignment explanation
Indices: 32369--32402 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
32359 AAAAAAAAAA
*
32369 AAAAAAAACAAAC
1 AAAACAAACAAAC
32382 -AAACAAACAAAC
1 AAAACAAACAAAC
32394 AAAACAAAC
1 AAAACAAAC
32403 TTACAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACAAAC
Found at i:32757 original size:31 final size:30
Alignment explanation
Indices: 32675--32765 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
32665 GTCCATGTGG
* *
32675 CATGTGGCA-TTTTTG-ACACGTGGCGTGC
1 CATGTGACATTTTTTGTACACGTGGCATGC
* *
32703 CATGTGTCCTTTTTTGTACACGTGGCATGC
1 CATGTGACATTTTTTGTACACGTGGCATGC
* *
32733 TATGTGACATTTTTTGGTAGACGTGGCATGC
1 CATGTGACATTTTTT-GTACACGTGGCATGC
32764 CA
1 CA
32766 CGTTGGATGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
28 7 0.13
29 6 0.12
30 24 0.46
31 15 0.29
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.36
Consensus pattern (30 bp):
CATGTGACATTTTTTGTACACGTGGCATGC
Found at i:35899 original size:156 final size:155
Alignment explanation
Indices: 35663--36026 Score: 359
Period size: 156 Copynumber: 2.3 Consensus size: 155
35653 AAGCTTCTCA
* * * * *
35663 CCTCAAATTATCCTTAAATGAAAAACTAGCATAAGTTTTCCATTCTAAGTCTGAATGAGCTGAAA
1 CCTCAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATTCTAAGTCTCAACGAGCTG-AA
* * * * *
35728 TTTTGCTAAGGGACTTAGAATATC-CACAT-GAGACTAT-GGAAAAAATTCTAAGTAAAACCGAG
65 TTTTGCCAAGAGACTTAGAATATCAC-CATCAAGA-TATGGGAAAAAA-CCTAAGTAAAACCGAA
* * *
35790 CTCCCCTTG-AT-GTTGAACTAGGTTTCTCT
127 CT-CCCTAGCATAG-AGAACTAGGTTTCACT
**
35819 CC-CTAAGTTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATTCTAAGTC-CAACGAAGCTG-
1 CCTC-AAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATTCTAAGTCTCAACG-AGCTGA
* *
35881 ATTTT-CCACCAGTAGACTTAGATTATCACCATCAAGATATGGGAAAAAACCTAAGTAAAACCTA
64 ATTTTGCCA--AG-AGACTTAGAATATCACCATCAAGATATGGGAAAAAACCTAAGTAAAACCGA
* * * *
35945 ACTCTCTAGCATAGAGAAGTTGGTTTGACT
126 ACTCCCTAGCATAGAGAACTAGGTTTCACT
* *
35975 CCTCAAACTGTCCTTAATTGAAAAACTAGCATAAGTTTTTCATACTAAGTCT
1 CCTCAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATTCTAAGTCT
36027 GTTTGAGATG
Statistics
Matches: 173, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
153 2 0.01
154 5 0.03
155 10 0.06
156 142 0.82
157 14 0.08
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (155 bp):
CCTCAAACTGTCCTTAAATGAAAAACTAGCATAAGTTTTTCATTCTAAGTCTCAACGAGCTGAAT
TTTGCCAAGAGACTTAGAATATCACCATCAAGATATGGGAAAAAACCTAAGTAAAACCGAACTCC
CTAGCATAGAGAACTAGGTTTCACT
Found at i:39093 original size:20 final size:21
Alignment explanation
Indices: 39065--39119 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
39055 CTTGATCTTG
*
39065 AGTCATTTG-CTCTTTAAGTA
1 AGTCATTTGACTCCTTAAGTA
* *
39085 AGTCGTTTGACTCCTTAAGTTG
1 AGTCATTTGACTCCTTAAG-TA
39107 AG-CATTTGACTCC
1 AGTCATTTGACTCC
39120 ATTACTCGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 8 0.28
21 18 0.62
22 3 0.10
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (21 bp):
AGTCATTTGACTCCTTAAGTA
Found at i:42276 original size:120 final size:121
Alignment explanation
Indices: 42133--42416 Score: 376
Period size: 120 Copynumber: 2.4 Consensus size: 121
42123 CCCCGAGTCC
* * *
42133 TTGCCCCCCAAGTCTTTCATCGATAAGGCCAACCTAAGCCATGAAC-TGTTGATTGTTCACCTGA
1 TTGCCCCCCAAGTCTTTCATCGATAAGACCAATCTAAGCCATGAACTTGTGGATTGTTCACCTGA
** * *
42197 TGGTTAACTTGTTGAAGGGGAAAAGGATCGAGCTGGGCACCAAGCAGTTGTTGGTT
66 TGGTTAACTTGTTGAAAAGGAAAAGCACCGAGCTGGGCACCAAGCAGTTGTTGGTT
* * * *
42253 TTGCCCCCCGAGTCTTTCATCGATGAGACCAATCTCAGCCATG-ACTTGTGGGTTGTTCACCTGA
1 TTGCCCCCCAAGTCTTTCATCGATAAGACCAATCTAAGCCATGAACTTGTGGATTGTTCACCTGA
* * * *
42317 TGGTTGACTTGTTGAAAAGGCAGAGCACCGGGCTGGGCACCAAGCAGTTGTTGGTT
66 TGGTTAACTTGTTGAAAAGGAAAAGCACCGAGCTGGGCACCAAGCAGTTGTTGGTT
* * *
42373 TT-CCCCTCCAAGTCTTTCTTCGATCAGACCAATCTTAGCCATGA
1 TTGCCCC-CCAAGTCTTTCATCGATAAGACCAATCTAAGCCATGA
42417 TGTTTTCTCT
Statistics
Matches: 142, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
119 6 0.04
120 136 0.96
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (121 bp):
TTGCCCCCCAAGTCTTTCATCGATAAGACCAATCTAAGCCATGAACTTGTGGATTGTTCACCTGA
TGGTTAACTTGTTGAAAAGGAAAAGCACCGAGCTGGGCACCAAGCAGTTGTTGGTT
Done.