Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, 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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 62
Found at i:2714999 original size:20 final size:20
Alignment explanation
Indices: 2714893--2715000 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 20
2714883 AAATTCAGTG
* *
2714893 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAAAATCGCA
* * *
2714913 TTGCGATAGTTAGAATTGCA
1 TTGCGATAGTCAAAATCGCA
**
2714933 TTGCGATTTTCTAAAATCGCA
1 TTGCGATAGTC-AAAATCGCA
* * *
2714954 ATGCGA-ATTTGAAAAATCGCA
1 TTGCGATA-GT-CAAAATCGCA
* *
2714975 ATGCGATAGTCAAAATCGCG
1 TTGCGATAGTCAAAATCGCA
2714995 TTGCGA
1 TTGCGA
2715001 ATCTGGAAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
20 38 0.55
21 30 0.43
22 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAAAATCGCA
Found at i:2715038 original size:20 final size:19
Alignment explanation
Indices: 2715015--2715059 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2715005 GGAAACTGAT
* *
2715015 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
2715035 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
2715054 TTGCGA
1 TTGCGA
2715060 CTTTGTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:2716299 original size:149 final size:149
Alignment explanation
Indices: 2716029--2716325 Score: 488
Period size: 149 Copynumber: 2.0 Consensus size: 149
2716019 CTTTCTTTGG
* * * *
2716029 GTGTTTTTGCTTGTTGAAGAACCTGAATTATGTGATGTAAAATTTGCCTTTGGATTCGAGTTTTA
1 GTGTTTTTGCTTATTGAAGAACCTGAATTATGTGATGGAAAATTTGCCTTTGGATTCGAGCTTCA
** *
2716094 AAGCTCTTATGATTGGTAATTCCACGTTTTTAGGATCTAATTACTGGATTAACAAGTTGAACATC
66 AAGCTCTTATGATTGGTAATTCCACGCATTTAGGATCTAATTACTGGATTAACAAGTTGAACATA
2716159 ATGTATTTGTTGATTGATA
131 ATGTATTTGTTGATTGATA
2716178 GTGTTTTTGCTTATTGAAGAACCTGAATTATGTGATGGAAAATTTGCCTTTGGATTCGAGCTTCA
1 GTGTTTTTGCTTATTGAAGAACCTGAATTATGTGATGGAAAATTTGCCTTTGGATTCGAGCTTCA
* * *
2716243 AAGCTCTTATTG-TTGGTAATTCCATGCATTTAGGATTTCATTACTGGATTAACAAGTTGAACAT
66 AAGCTCTTA-TGATTGGTAATTCCACGCATTTAGGATCTAATTACTGGATTAACAAGTTGAACAT
2716307 AATGTATTTGTTGATTGAT
130 AATGTATTTGTTGATTGAT
2716326 TTATTATTCT
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
149 135 0.99
150 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (149 bp):
GTGTTTTTGCTTATTGAAGAACCTGAATTATGTGATGGAAAATTTGCCTTTGGATTCGAGCTTCA
AAGCTCTTATGATTGGTAATTCCACGCATTTAGGATCTAATTACTGGATTAACAAGTTGAACATA
ATGTATTTGTTGATTGATA
Found at i:2718836 original size:62 final size:62
Alignment explanation
Indices: 2718648--2718838 Score: 251
Period size: 62 Copynumber: 3.1 Consensus size: 62
2718638 CAAATTAAAT
* * *
2718648 TATAAATGAGTTAATATCACATTTGACTATAAATACATTTGTAATATAATAGGAGCAATATATA
1 TATATATGAGTTAATATCACATTTGACTATAAGTACATTTGTAATATAAT--GAGTAATATATA
* * * * *
2718712 TACATATGAGTTAATATCACATTGGAC--TAAGTACATTTGTTATATAATAAGTAGTATATA
1 TATATATGAGTTAATATCACATTTGACTATAAGTACATTTGTAATATAATGAGTAATATATA
* * *
2718772 TATGTATGAGTTAATATCACATTTGACTATAAGTAAATTTGTAATATAATGAGTATTATATA
1 TATATATGAGTTAATATCACATTTGACTATAAGTACATTTGTAATATAATGAGTAATATATA
2718834 TATAT
1 TATAT
2718839 GTGTGTAATT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
60 33 0.30
62 52 0.48
64 24 0.22
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (62 bp):
TATATATGAGTTAATATCACATTTGACTATAAGTACATTTGTAATATAATGAGTAATATATA
Found at i:2719237 original size:13 final size:13
Alignment explanation
Indices: 2719219--2719243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2719209 GTATATGCTT
2719219 CAAGTCTATTTCC
1 CAAGTCTATTTCC
2719232 CAAGTCTATTTC
1 CAAGTCTATTTC
2719244 TCATCTCTTT
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:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (13 bp):
CAAGTCTATTTCC
Found at i:2723961 original size:67 final size:67
Alignment explanation
Indices: 2723839--2723979 Score: 237
Period size: 67 Copynumber: 2.1 Consensus size: 67
2723829 GAAGACGATC
* * * *
2723839 TCATTATGGGTTATTCTGATCCATATCATAGTTGGGGTCCTAATACAACTTGCCTTGGTTGTACT
1 TCATAATGGGTTATTATGATCCATATCATAGTTAGGGTCCTAATACAACTAGCCTTGGTTGTACT
2723904 TA
66 TA
*
2723906 TCATAATGGGTTATTATGATCCATATCATAGTTAGGGTCCTAATACTACTAGCCTTGGTTGTACT
1 TCATAATGGGTTATTATGATCCATATCATAGTTAGGGTCCTAATACAACTAGCCTTGGTTGTACT
2723971 TA
66 TA
2723973 TCATAAT
1 TCATAAT
2723980 CAGTATCCCC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (67 bp):
TCATAATGGGTTATTATGATCCATATCATAGTTAGGGTCCTAATACAACTAGCCTTGGTTGTACT
TA
Found at i:2730505 original size:69 final size:69
Alignment explanation
Indices: 2730390--2730527 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
2730380 TATTTGCGCA
*
2730390 GAAATCTCTAAATCTACGATTTCTATACTCTCCTCCATTGTTAGACCTCAACCGCTTGACTTTCA
1 GAAATCTCTAAATCTACGATTTCTATACTCTCCTCCATTGTCAGACCTCAACCGCTTGACTTTCA
2730455 GACC
66 GACC
* *
2730459 GAAATCTCTGAATCTACGATTTCTGTACTCTCCTCCATTGTCAGACCTCAACCGCTTGACTTTCA
1 GAAATCTCTAAATCTACGATTTCTATACTCTCCTCCATTGTCAGACCTCAACCGCTTGACTTTCA
2730524 GACC
66 GACC
2730528 AATCTCATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.33
Consensus pattern (69 bp):
GAAATCTCTAAATCTACGATTTCTATACTCTCCTCCATTGTCAGACCTCAACCGCTTGACTTTCA
GACC
Found at i:2737064 original size:96 final size:96
Alignment explanation
Indices: 2736900--2737092 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 96
2736890 TCAGCTCTCA
2736900 CAAAATGCAGGCACAGACATGCATATAGGCAAGCAAAGCTTGGGAGAGAATAATGTTGGAATTCC
1 CAAAATGCAGGCACAGACATGCATATAGGCAAGCAAAGCTTGGGAGAGAATAATGTTGGAATTCC
* * *
2736965 TAAAATTAAGGGCAGAATCTTTACCTTATTT
66 TAAAATTAAAGACAAAATCTTTACCTTATTT
2736996 CAAAATGCAGGCACAGACATGCATATAGGCAAGCAAAGCTTGGGAGAGAATAATGTTGGAATTCC
1 CAAAATGCAGGCACAGACATGCATATAGGCAAGCAAAGCTTGGGAGAGAATAATGTTGGAATTCC
2737061 TAAAATTAAAGACAAAATCTTTACCTTATTT
66 TAAAATTAAAGACAAAATCTTTACCTTATTT
2737092 C
1 C
2737093 TAGGAGCTTA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (96 bp):
CAAAATGCAGGCACAGACATGCATATAGGCAAGCAAAGCTTGGGAGAGAATAATGTTGGAATTCC
TAAAATTAAAGACAAAATCTTTACCTTATTT
Found at i:2746162 original size:15 final size:15
Alignment explanation
Indices: 2746125--2746156 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
2746115 CAAATTCCCT
2746125 AAAAAATAT--TTTA
1 AAAAAATATACTTTA
2746138 AAAAAATATACTTTA
1 AAAAAATATACTTTA
2746153 AAAA
1 AAAA
2746157 TTTATAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
15 8 0.47
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAATATACTTTA
Found at i:2758441 original size:19 final size:20
Alignment explanation
Indices: 2758419--2758458 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2758409 TAAATTATTT
*
2758419 AATACAAA-TATGTTTACAA
1 AATACAAATTAAGTTTACAA
*
2758438 AATATAAATTAAGTTTACAA
1 AATACAAATTAAGTTTACAA
2758458 A
1 A
2758459 CTATGGGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
AATACAAATTAAGTTTACAA
Found at i:2765658 original size:21 final size:21
Alignment explanation
Indices: 2765632--2765676 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2765622 GATTTCTGGG
*
2765632 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
2765653 CAAGGGGAATCGATACCCCTT
1 CAAGGGGAATCGATACCCATT
2765674 CAA
1 CAA
2765677 ACGAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:2767139 original size:31 final size:31
Alignment explanation
Indices: 2767052--2767179 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
2767042 AGAGTCGAGG
*
2767052 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
*
2767083 GTTTTACCTATGTCTTTCAA-G-ACATATGGACA
1 G-TTTACCTATGT-TCT-AAGGAACATATGGACA
*
2767115 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
* * ** * *
2767146 TTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
2767177 GTT
1 GTT
2767180 ACCGAGGATC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.03
30 3 0.04
31 48 0.60
32 23 0.29
33 3 0.04
34 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGACA
Found at i:2767199 original size:30 final size:30
Alignment explanation
Indices: 2767165--2767267 Score: 179
Period size: 30 Copynumber: 3.4 Consensus size: 30
2767155 GGTTCTTCGG
* *
2767165 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
2767195 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
2767225 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
2767255 GACTTCTGGATAG
1 GACCTCTGGATAG
2767268 GTCCTTCGGG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:2770627 original size:21 final size:21
Alignment explanation
Indices: 2770601--2770650 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2770591 GGAAGTTCAA
2770601 TGACAGGTCAAATGATCAATG
1 TGACAGGTCAAATGATCAATG
*
2770622 TGACAGGTCGAATGATCAATG
1 TGACAGGTCAAATGATCAATG
*
2770643 TGTCAGGT
1 TGACAGGT
2770651 TAACAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (21 bp):
TGACAGGTCAAATGATCAATG
Found at i:2775548 original size:2 final size:2
Alignment explanation
Indices: 2775541--2775568 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2775531 CATCAGTTTA
2775541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2775569 CTAATTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2776772 original size:13 final size:13
Alignment explanation
Indices: 2776754--2776780 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2776744 TGTGCATGTT
2776754 GGACAGTGCTTTG
1 GGACAGTGCTTTG
2776767 GGACAGTGCTTTG
1 GGACAGTGCTTTG
2776780 G
1 G
2776781 TGTGCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.41, T:0.30
Consensus pattern (13 bp):
GGACAGTGCTTTG
Found at i:2781699 original size:21 final size:21
Alignment explanation
Indices: 2781673--2781714 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2781663 CCACATCGTT
*
2781673 TCCTCCTCTTTCTCCTCCGCC
1 TCCTCCTCTGTCTCCTCCGCC
*
2781694 TCCTCCTCTGTCTGCTCCGCC
1 TCCTCCTCTGTCTCCTCCGCC
2781715 GCTGCCGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.10, T:0.36
Consensus pattern (21 bp):
TCCTCCTCTGTCTCCTCCGCC
Found at i:2785933 original size:19 final size:20
Alignment explanation
Indices: 2785905--2785943 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2785895 TTCGTCCGAG
*
2785905 GTTTTATAT-ATAATATATA
1 GTTTTATATAAAAATATATA
*
2785924 GTTTTTTATAAAAATATATA
1 GTTTTATATAAAAATATATA
2785944 TAATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
GTTTTATATAAAAATATATA
Found at i:2785950 original size:29 final size:30
Alignment explanation
Indices: 2785909--2785966 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
2785899 TCCGAGGTTT
2785909 TATATAT-A-ATATATAGTTTTTTATAAAAA
1 TATATATAATATATATAGTTTTTTA-AAAAA
2785938 TATATATAATATATATAGTTTTTTAAAAA
1 TATATATAATATATATAGTTTTTTAAAAA
2785967 GACGTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.26
30 5 0.19
31 15 0.56
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATATAATATATATAGTTTTTTAAAAAA
Found at i:2786024 original size:39 final size:39
Alignment explanation
Indices: 2785934--2786085 Score: 166
Period size: 37 Copynumber: 3.8 Consensus size: 39
2785924 GTTTTTTATA
*
2785934 AAAATATATATA-ATATATATAGTTTTTTAAAAAGACGTTTTG
1 AAAATATATATATA-ATATATAG-TTTTT-AAAA-ACATTTTG
2785976 AAAACATATATATATAATATATAGTTTTTAAAAACATTTTG
1 -AAA-ATATATATATAATATATAGTTTTTAAAAACATTTTG
** * *
2786017 -AAA-ATATATATAGGATATAGTTTTTGAAAACATTTTA
1 AAAATATATATATAATATATAGTTTTTAAAAACATTTTG
* *
2786054 AAAACATATATATAATATATAGTTTTTGAAAA
1 AAAATATATATATAATATATAGTTTTTAAAAA
2786086 TATATATATT
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
37 30 0.31
38 4 0.04
39 27 0.28
41 7 0.07
42 4 0.04
43 8 0.08
44 17 0.17
45 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (39 bp):
AAAATATATATATAATATATAGTTTTTAAAAACATTTTG
Found at i:2786098 original size:26 final size:27
Alignment explanation
Indices: 2786049--2786132 Score: 107
Period size: 26 Copynumber: 3.0 Consensus size: 27
2786039 TTTGAAAACA
*
2786049 TTTTAAAAACATATATATAATATATAGT
1 TTTTAAAAA-ATATATATATTATATAGT
*
2786077 TTTT-GAAAATATATATATTATATAGT
1 TTTTAAAAAATATATATATTATATAGT
2786103 TTTTAAAAAAATATTTATATATTATATAGT
1 TTTT-AAAAAATA--TATATATTATATAGT
2786133 ATAGTATAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
26 21 0.43
27 3 0.06
28 10 0.20
30 15 0.31
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (27 bp):
TTTTAAAAAATATATATATTATATAGT
Found at i:2786100 original size:37 final size:36
Alignment explanation
Indices: 2785981--2786100 Score: 114
Period size: 37 Copynumber: 3.2 Consensus size: 36
2785971 TTTTGAAAAC
* *
2785981 ATATATATATAATATATAGTTTTTAAAAACATTTTGA
1 ATATATATATAATATATAGTTTTTGAAAACATTAT-A
* ** *
2786018 AAATATATATAGGATATAGTTTTTGAAAACATTTTAAAA
1 ATATATATATAATATATAGTTTTTGAAAACA--TT-ATA
* *
2786057 ACATATATATAATATATAGTTTTTGAAAATATATATA
1 ATATATATATAATATATAGTTTTTGAAAACAT-TATA
*
2786094 TTATATA
1 ATATATA
2786101 GTTTTTAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
37 35 0.53
38 1 0.02
39 30 0.45
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (36 bp):
ATATATATATAATATATAGTTTTTGAAAACATTATA
Found at i:2786135 original size:5 final size:5
Alignment explanation
Indices: 2786127--2787019 Score: 1406
Period size: 5 Copynumber: 181.6 Consensus size: 5
2786117 TTATATATTA
2786127 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG T-TAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786176 -ATAG TATAG TATAG TATAG TATAG TA-AG TATAG TATAG TATA- -ATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786222 TATAG TATAG TATAG -ATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786271 TATAG TATAG TATAG TATAG T-TAG TATAG TATAG TATAG TATAG --TAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786318 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATA- -ATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* *
2786366 TATAG TATAG TATAG TACAG TATAG TATAA TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* * *
2786416 TACAG TATAG TACAG TATAG TATAG TATAA TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* * * * * * * *
2786466 TATAG TATAG TACAG TATAG TACAG TACAG TACAG TACAG TACAA TACAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
* * * * * * * * * * *
2786516 TACAA TACAG TACAG TACAG TACAG TACAA TACAG TACAG TATAG TACAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
*
2786566 TACAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786616 TATAG TATAG TATAG TATAG TATAG TATAG T-TAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
*
2786665 TATAG TATAG --TAG TATAG TATCG TATAG TA-AG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
*
2786712 TATAG ATAGTAG TATAG TATCG TATAG TATAG TATAG TATAG --TAG TATAG
1 TATAG -TA-TAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786762 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786812 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786862 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786912 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2786962 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
2787012 TATAG TAT
1 TATAG TAT
2787020 TATATATTAT
Statistics
Matches: 843, Mismatches: 26, Indels: 38
0.93 0.03 0.04
Matches are distributed among these distances:
3 15 0.02
4 26 0.03
5 795 0.94
6 4 0.00
7 3 0.00
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (5 bp):
TATAG
Found at i:2790401 original size:22 final size:22
Alignment explanation
Indices: 2790373--2790416 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2790363 CAAATAAAAA
2790373 GGAGAGGGGAAGAGAAAGAGGT
1 GGAGAGGGGAAGAGAAAGAGGT
2790395 GGAGAGGGGAAGAGAAAGAGGT
1 GGAGAGGGGAAGAGAAAGAGGT
2790417 TAGTGTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.55, T:0.05
Consensus pattern (22 bp):
GGAGAGGGGAAGAGAAAGAGGT
Found at i:2796459 original size:20 final size:20
Alignment explanation
Indices: 2796431--2796515 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
2796421 TCCAATTTCA
2796431 CAACACAGTTTTCAAATTCG
1 CAACACAGTTTTCAAATTCG
* *
2796451 CAACTCAGTTTCTGAAA-TCG
1 CAACACAGTTT-TCAAATTCG
* * *
2796471 TAACGC-GATTTCCAAATTCG
1 CAACACAG-TTTTCAAATTCG
*
2796491 CAACACGAAATTTT-AAATTCG
1 CAACAC--AGTTTTCAAATTCG
2796512 CAAC
1 CAAC
2796516 TCGATTTCTG
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
19 4 0.08
20 27 0.55
21 15 0.31
22 3 0.06
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (20 bp):
CAACACAGTTTTCAAATTCG
Found at i:2796591 original size:20 final size:20
Alignment explanation
Indices: 2796485--2796654 Score: 111
Period size: 20 Copynumber: 8.6 Consensus size: 20
2796475 GCGATTTCCA
2796485 AATTCGCAACACGAAATTT-T
1 AATTCGCAACACG-AATTTCT
*
2796505 AAATTCGCAACTCG-ATTTCT
1 -AATTCGCAACACGAATTTCT
* * *
2796525 GAATTAGCAACGCGAAATTCT
1 -AATTCGCAACACGAATTTCT
* *
2796546 -TTTCGTAACAC-AAGTTTCT
1 AATTCGCAACACGAA-TTTCT
* * *
2796565 -TTTCGCAACAAGATTTTCT
1 AATTCGCAACACGAATTTCT
*
2796584 AATTCGCAACACGAAATTTGT
1 AATTCGCAACACG-AATTTCT
* * * *
2796605 -TTTCGCAACTCGATTTTCG
1 AATTCGCAACACGAATTTCT
2796624 AATTCGCAACACGAATTT-T
1 AATTCGCAACACGAATTTCT
2796643 AATTTCGCAACA
1 AA-TTCGCAACA
2796655 GCTTTTATTT
Statistics
Matches: 115, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.02
19 35 0.30
20 56 0.49
21 22 0.19
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
AATTCGCAACACGAATTTCT
Found at i:2796608 original size:40 final size:40
Alignment explanation
Indices: 2796547--2796654 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
2796537 CGAAATTCTT
* * * *
2796547 TTCGTAACAC-AAGTTTCTTTTCGCAACAAGATTTTCTAA
1 TTCGCAACACGAAATTTATTTTCGCAACAAGATTTTCGAA
* **
2796586 TTCGCAACACGAAATTTGTTTTCGCAACTCGATTTTCGAA
1 TTCGCAACACGAAATTTATTTTCGCAACAAGATTTTCGAA
* *
2796626 TTCGCAACACGAATTTTAATTTCGCAACA
1 TTCGCAACACGAAATTTATTTTCGCAACA
2796655 GCTTTTATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (40 bp):
TTCGCAACACGAAATTTATTTTCGCAACAAGATTTTCGAA
Found at i:2796846 original size:16 final size:15
Alignment explanation
Indices: 2796811--2796849 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2796801 TCCCCATCTC
*
2796811 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
2796826 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
2796842 TAATTTTT
1 TAATTTTT
2796850 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:2797456 original size:12 final size:12
Alignment explanation
Indices: 2797435--2797468 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2797425 ACCACATTTC
*
2797435 CAATACCAAACA
1 CAATATCAAACA
2797447 CAATATCAAACA
1 CAATATCAAACA
*
2797459 CAATCTCAAA
1 CAATATCAAA
2797469 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:2797621 original size:24 final size:24
Alignment explanation
Indices: 2797594--2797647 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2797584 GTATTCAAAA
2797594 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2797618 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2797642 TTTGAT
1 TTTGAT
2797648 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2798447 original size:42 final size:42
Alignment explanation
Indices: 2798388--2798486 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
2798378 GCAATGGAAT
* * * *
2798388 AGGTGATGGCTCTCGGTGTCTAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATC
*
2798430 AGGTGGTGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATC
2798472 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
2798487 AAGTGGGGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.16, C:0.20, G:0.35, T:0.28
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATC
Found at i:2800293 original size:4 final size:4
Alignment explanation
Indices: 2800278--2800320 Score: 68
Period size: 4 Copynumber: 10.5 Consensus size: 4
2800268 CATGTAACAA
*
2800278 ATAC ACTAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
2800321 GTCATTATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 32 0.89
5 4 0.11
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:2800702 original size:20 final size:20
Alignment explanation
Indices: 2800674--2800734 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
2800664 CACTGAATAT
2800674 TTGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* *
2800694 TTGTTCCGAAGGACCACTGT
1 TTGTCCCGAAGGACCACTGA
*
2800714 TTATCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
2800734 T
1 T
2800735 AATCCCTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:2804555 original size:25 final size:25
Alignment explanation
Indices: 2804521--2804569 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
2804511 AAATATTTAC
* *
2804521 AATTAAATTTAAATAGAAACTCGAT
1 AATTAAATTTAAACAAAAACTCGAT
2804546 AATTAAATTTAAACAAAAACTCGA
1 AATTAAATTTAAACAAAAACTCGA
2804570 ACAATTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (25 bp):
AATTAAATTTAAACAAAAACTCGAT
Found at i:2805007 original size:17 final size:17
Alignment explanation
Indices: 2804985--2805036 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
2804975 TATTATAAAA
2804985 TATATTTTTAATATAAT
1 TATATTTTTAATATAAT
* *
2805002 TATATTTTTTAT-TTAT
1 TATATTTTTAATATAAT
*
2805018 ATATATTTTTATTATAAT
1 -TATATTTTTAATATAAT
2805036 T
1 T
2805037 TAAATTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 22 0.79
18 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTTTAATATAAT
Found at i:2805022 original size:34 final size:35
Alignment explanation
Indices: 2804984--2805058 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
2804974 TTATTATAAA
* *
2804984 ATATATTTTTAATATAA-TTATATTT-TTTATTTAT
1 ATATATTTTTAATATAATTTAAATTTATATATTT-T
*
2805018 ATATATTTTTATTATAATTTAAATTTATATATTTT
1 ATATATTTTTAATATAATTTAAATTTATATATTTT
2805053 ATATAT
1 ATATAT
2805059 CATAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 16 0.44
35 14 0.39
36 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (35 bp):
ATATATTTTTAATATAATTTAAATTTATATATTTT
Found at i:2805046 original size:26 final size:30
Alignment explanation
Indices: 2805017--2805070 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 30
2805007 TTTTTATTTA
2805017 TATATATTTT-TAT-T-ATAAT-TTAAATT
1 TATATATTTTATATATCATAATATTAAATT
2805043 TATATATTTTATATATCATAATATTAAA
1 TATATATTTTATATATCATAATATTAAA
2805071 ATATATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 10 0.42
27 3 0.12
28 1 0.04
29 5 0.21
30 5 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TATATATTTTATATATCATAATATTAAATT
Found at i:2805154 original size:13 final size:13
Alignment explanation
Indices: 2805136--2805168 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2805126 AACAATCAAA
2805136 TTTTAAAC-TCCAC
1 TTTTAAACAT-CAC
2805149 TTTTAAACATCAC
1 TTTTAAACATCAC
2805162 TTTTAAA
1 TTTTAAA
2805169 AGTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTTAAACATCAC
Found at i:2832969 original size:147 final size:148
Alignment explanation
Indices: 2832763--2833074 Score: 506
Period size: 150 Copynumber: 2.1 Consensus size: 148
2832753 GGGTAGAGGG
* *
2832763 TCTACGC-GTCCTTCGGGACATATGTATATTCTTTGAACAAATGTGAAGTCTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTGGAACAAATGTGAAGTCTTGGAAAGACACAT
*
2832827 ACTTGGTCCCTAGTATATG-TAT-ATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
66 ACTTGATCCCTAGTATATGATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
2832890 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
* * **
2832908 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAATATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCT-TGGAACAAATGTGAAGTCTTGGAAAGACACA
2832973 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAGTATATG-ATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
2833038 ATATGGCACTACGGTGCAAT
129 ATATGGCACTACGGTGCAAT
2833058 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
2833075 TGCATTTATA
Statistics
Matches: 154, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
145 7 0.05
146 23 0.15
147 46 0.30
149 4 0.03
150 74 0.48
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTGGAACAAATGTGAAGTCTTGGAAAGACACAT
ACTTGATCCCTAGTATATGATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:2833086 original size:23 final size:23
Alignment explanation
Indices: 2833042--2833086 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2833032 ATCATTATAT
*
2833042 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
2833065 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2833087 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:2833949 original size:23 final size:23
Alignment explanation
Indices: 2833923--2833988 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
2833913 CACCACAGCT
*
2833923 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
2833946 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
2833969 CGTAGAAATGCATCGAAGTG
1 CGTAGAAATGCACCGAAGTG
2833989 TCATATAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2834460 original size:2 final size:2
Alignment explanation
Indices: 2834453--2834480 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2834443 ATTCATCTTC
2834453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2834481 CATTTTCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2835229 original size:23 final size:23
Alignment explanation
Indices: 2835201--2835283 Score: 123
Period size: 23 Copynumber: 3.6 Consensus size: 23
2835191 CTCATATAAA
* *
2835201 TGCACCGAAGTGCC-ACATAGAAT
1 TGCACCGTAGTGCCGA-GTAGAAT
*
2835224 TTCACCGTAGTGCCGAGTAGAAT
1 TGCACCGTAGTGCCGAGTAGAAT
2835247 TGCACCGTAGTGCCGAGTAGAAT
1 TGCACCGTAGTGCCGAGTAGAAT
2835270 TGCACCGTAGTGCC
1 TGCACCGTAGTGCC
2835284 ATATAATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 54 0.98
24 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (23 bp):
TGCACCGTAGTGCCGAGTAGAAT
Found at i:2835415 original size:18 final size:19
Alignment explanation
Indices: 2835387--2835430 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
2835377 TCCAAGAATA
2835387 CATATATGTCCCGAAGGAC
1 CATATATGTCCCGAAGGAC
2835406 CATA-ATGTCCCGAAGGAC
1 CATATATGTCCCGAAGGAC
2835424 CATATAT
1 CATATAT
2835431 CATTCCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (19 bp):
CATATATGTCCCGAAGGAC
Found at i:2835505 original size:62 final size:62
Alignment explanation
Indices: 2835439--2835634 Score: 153
Period size: 62 Copynumber: 3.2 Consensus size: 62
2835429 ATCATTCCTT
2835439 AAGAAT-CATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
1 AAGAATACATATACATAT-CCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
* * * * * * *
2835501 AAGAATACATAT--ATGTCCCGAAGGA-CCA-TA-ATATC-C-CGAAGGAC--CACATATCATTC
1 AAGAATACATATACATAT-CC-AAGGATCAAGTATGTGTCTCAC-CA-GACTTCACACAT-GTTC
*
2835557 CTT
61 C-A
* *
2835560 AAGAAT-CATATACATATACTAGAGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
1 AAGAATACATATACATATCCAAG-GATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
2835622 AAGAATACATATA
1 AAGAATACATATA
2835635 TGTCCCGAAG
Statistics
Matches: 98, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
57 7 0.07
58 13 0.13
59 15 0.15
60 7 0.07
61 9 0.09
62 23 0.23
63 17 0.17
64 7 0.07
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (62 bp):
AAGAATACATATACATATCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCA
Found at i:2835562 original size:121 final size:120
Alignment explanation
Indices: 2835300--2835649 Score: 598
Period size: 121 Copynumber: 2.9 Consensus size: 120
2835290 TAATGTCCAT
* *
2835300 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-CCAAGGATCAAGTATGTGTCTCACCA
*
2835365 GACTT--CACATGTTCC-AAGAATACATATATGTCCCGAAGGACCATAATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
*
2835418 AAGGACCATATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-CCAAGGATCAAGTATGTGTCTCACCA
2835483 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
* *
2835539 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATCCAAG-GATCAAGTATGTGTCTCACCA
2835604 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
2835650 CATAGACCCT
Statistics
Matches: 220, Mismatches: 8, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
118 66 0.30
120 13 0.06
121 141 0.64
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (120 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATCCAAGGATCAAGTATGTGTCTCACCAG
ACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
Found at i:2836813 original size:21 final size:21
Alignment explanation
Indices: 2836789--2836833 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2836779 TTTTGTTCGT
* *
2836789 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2836810 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2836831 TTG
1 TTG
2836834 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2840777 original size:23 final size:23
Alignment explanation
Indices: 2840734--2840794 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
2840724 CTCATATAAA
* *
2840734 TGCACCGAAGTGCCACATAGATT
1 TGCACCGTAGTGCCACATAGAAT
*
2840757 TGCACCGTAGTGCCGA-GTAGAAT
1 TGCACCGTAGTGCC-ACATAGAAT
*
2840780 TGCACTGTAGTGCCA
1 TGCACCGTAGTGCCA
2840795 TATAATAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:2840976 original size:59 final size:60
Alignment explanation
Indices: 2840908--2841089 Score: 153
Period size: 59 Copynumber: 3.0 Consensus size: 60
2840898 TACATATATG
*
2840908 TCCCGAAGGACCATAATATCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATA
1 TCCCGAAGGACCATAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATA
* * * * * * *
2840968 TGCC-AAGGATCAAGTATGTGTCTCAC-CA-GACTTCACACAT-GTTCC-AAAGAATACATAT--
1 TCCCGAAGGA-CCA-TA-ATGTC-C-CGAAGGAC--CACATATCATTCCTTAAGAAT-CATATAC
*
2841026 ATG
58 ATA
*
2841029 TCCCGAAGGAACATAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATA
1 TCCCGAAGGACCATAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATA
2841089 T
1 T
2841090 ACTAGAGATC
Statistics
Matches: 89, Mismatches: 18, Indels: 30
0.65 0.13 0.22
Matches are distributed among these distances:
57 7 0.08
58 11 0.12
59 18 0.20
60 10 0.11
61 8 0.09
62 17 0.19
63 11 0.12
64 7 0.08
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (60 bp):
TCCCGAAGGACCATAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATA
Found at i:2841013 original size:121 final size:120
Alignment explanation
Indices: 2840810--2841162 Score: 625
Period size: 121 Copynumber: 2.9 Consensus size: 120
2840800 TAATGTCCAT
* *
2840810 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-CCAAGGATCAAGTATGTGTCTCACCA
2840875 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
2840931 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-CCAAGGATCAAGTATGTGTCTCACCA
* *
2840996 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGAACATAATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
* *
2841052 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATCCAAG-GATCAAGTATGTGTCTCACCA
2841117 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCA
2841163 CATAGACCCT
Statistics
Matches: 223, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 3 0.01
121 220 0.99
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (120 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATCCAAGGATCAAGTATGTGTCTCACCAG
ACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCATAATATCCCG
Found at i:2841049 original size:18 final size:19
Alignment explanation
Indices: 2841020--2841056 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2841010 TCCAAAGAAT
2841020 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCGAAGGA
2841039 ACATA-ATGTCCCGAAGGA
1 ACATATATGTCCCGAAGGA
2841057 CCACATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (19 bp):
ACATATATGTCCCGAAGGA
Found at i:2846902 original size:23 final size:23
Alignment explanation
Indices: 2846876--2846943 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
2846866 CATCTTATAT
2846876 GGCACTTCGGTGCATTTCTATGC
1 GGCACTTCGGTGCATTTCTATGC
* * * *
2846899 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTATGC
*
2846922 GGCACTTCGGTGCATTTATATG
1 GGCACTTCGGTGCATTTCTATG
2846944 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTATGC
Found at i:2848871 original size:24 final size:23
Alignment explanation
Indices: 2848826--2848872 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2848816 TATTTTTAAA
* *
2848826 TAGATAATACTTTTTATTTATTC
1 TAGATAATACATTTTATATATTC
*
2848849 TAGATAATACATTTTGTGATATTC
1 TAGATAATACATTTTAT-ATATTC
2848873 GTCCTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (23 bp):
TAGATAATACATTTTATATATTC
Found at i:2849689 original size:20 final size:19
Alignment explanation
Indices: 2849661--2849730 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
2849651 CTGAATTTCA
*
2849661 AATTTGCAACTCGATTTCTG
1 AATTCGCAACTCGATTT-TG
*
2849681 AATTCGCAACGCGAATTTTG
1 AATTCGCAACTCG-ATTTTG
**
2849701 TTTTCGCAACTCGATTTTCG
1 AATTCGCAACTCGATTTT-G
2849721 AATTCGCAAC
1 AATTCGCAAC
2849731 ATGAATTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.12
20 32 0.78
21 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (19 bp):
AATTCGCAACTCGATTTTG
Found at i:2849928 original size:13 final size:14
Alignment explanation
Indices: 2849910--2849938 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2849900 TCCCTATCTC
2849910 TAATTTT-TTTATA
1 TAATTTTATTTATA
2849923 TAATTTTATTTATA
1 TAATTTTATTTATA
2849937 TA
1 TA
2849939 TAAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATTTTATTTATA
Found at i:2850710 original size:24 final size:24
Alignment explanation
Indices: 2850683--2850729 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2850673 AGTCAGTATT
2850683 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
*
2850707 CGAACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
2850730 TTAGATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:2852968 original size:18 final size:18
Alignment explanation
Indices: 2852945--2852981 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2852935 CAAGCAAAAG
*
2852945 AAAATCAAAATCGCAATC
1 AAAATCAAAATCCCAATC
2852963 AAAATCAAAATCCCAATC
1 AAAATCAAAATCCCAATC
2852981 A
1 A
2852982 CAACCGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.24, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAATCAAAATCCCAATC
Found at i:2853291 original size:20 final size:20
Alignment explanation
Indices: 2853268--2853332 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
2853258 AAATCGCAAC
*
2853268 GCGAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCGCGTT
2853288 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
2853308 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
2853328 GCGAA
1 GCGAA
2853333 AGTGTACCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:2853492 original size:64 final size:64
Alignment explanation
Indices: 2853391--2853558 Score: 291
Period size: 64 Copynumber: 2.6 Consensus size: 64
2853381 AATTTAAAAC
2853391 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
*** * *
2853455 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
2853519 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAA
2853559 AGTGTACCCT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 99 1.00
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
Found at i:2854943 original size:21 final size:21
Alignment explanation
Indices: 2854919--2854973 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2854909 GTGGGAGGAA
2854919 CCTCTTGAACGATGACAAGGG
1 CCTCTTGAACGATGACAAGGG
* *
2854940 CCTCTTGAACTG-TGAGAGGGG
1 CCTCTTGAAC-GATGACAAGGG
*
2854961 CCTCTTAAACGAT
1 CCTCTTGAACGAT
2854974 AGTAGAGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGACAAGGG
Found at i:2856641 original size:21 final size:21
Alignment explanation
Indices: 2856599--2856641 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2856589 TTTCTGGGCT
* * *
2856599 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
2856620 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
2856641 A
1 A
2856642 ACGAACCATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:2857216 original size:2 final size:2
Alignment explanation
Indices: 2857209--2857236 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2857199 AAACATTGAC
2857209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2857237 GAATATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2858265 original size:105 final size:104
Alignment explanation
Indices: 2858075--2858297 Score: 259
Period size: 105 Copynumber: 2.1 Consensus size: 104
2858065 GAGTCGAGGG
* * *
2858075 TCTACGCGGTCATTCGAAACATATAGGTATCTTATGGAACATCTATGAGGTCCTTTGTGACACAT
1 TCTACGTGGTCCTTCGAAACATATAGGTATCTTATGGAACATCTATGAGGTCCTTTGAGACACAT
* *
2858140 ATTTGTTCCGTAGCATATGTATATGATTCTTAAGGAATTT
66 ACTTGATCCGTAGCATATGTATATGATTCTTAAGGAA-TT
** * * * * *
2858180 TCTACGTGGTCCTTCGGGACATATATGTATTCTT-TGGAGCATGTATGAGGTCTTTTGAGACACT
1 TCTACGTGGTCCTTCGAAACATATAGGTA-TCTTATGGAACATCTATGAGGTCCTTTGAGACACA
* * * *
2858244 TACTTGATCCTTGGTATATGTATATGGTTCTTAAGGAATT
65 TACTTGATCCGTAGCATATGTATATGATTCTTAAGGAATT
* *
2858284 TATATGTGGTCCTT
1 TCTACGTGGTCCTT
2858298 ATGGACAATC
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 14 0.14
105 81 0.82
106 4 0.04
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (104 bp):
TCTACGTGGTCCTTCGAAACATATAGGTATCTTATGGAACATCTATGAGGTCCTTTGAGACACAT
ACTTGATCCGTAGCATATGTATATGATTCTTAAGGAATT
Found at i:2858359 original size:23 final size:24
Alignment explanation
Indices: 2858314--2858359 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2858304 AATCTTATTT
*
2858314 GGCACTACGGTGCAAATTCTACGC
1 GGCACTACGGTGCAAATTATACGC
*
2858338 GGCACTTCGGTGC-AATTATACG
1 GGCACTACGGTGCAAATTATACG
2858360 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (24 bp):
GGCACTACGGTGCAAATTATACGC
Found at i:2860201 original size:19 final size:20
Alignment explanation
Indices: 2860153--2860205 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
2860143 ATAGTTTATG
2860153 AAACTTAAAATCGCAACGCGA
1 AAAC-TAAAATCGCAACGCGA
*
2860174 AAA-TGAAAATCTCAACGC-A
1 AAACT-AAAATCGCAACGCGA
2860193 AAACTAAAATCGC
1 AAACTAAAATCGC
2860206 GTTGCGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 12 0.43
20 13 0.46
21 3 0.11
ACGTcount: A:0.51, C:0.23, G:0.11, T:0.15
Consensus pattern (20 bp):
AAACTAAAATCGCAACGCGA
Found at i:2860591 original size:22 final size:22
Alignment explanation
Indices: 2860566--2860617 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
2860556 TGAGAGAGAT
2860566 AGACGGATTTCGCCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
* *
2860588 AGACAGATTTCGTCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
*
2860610 GGACGGAT
1 AGACGGAT
2860618 GCCGCCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.19
Consensus pattern (22 bp):
AGACGGATTTCGCCGGAGATGG
Found at i:2860797 original size:20 final size:20
Alignment explanation
Indices: 2860772--2860820 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2860762 TAAACGCGCT
2860772 TTGCAAATTTGACTTTTGTG
1 TTGCAAATTTGACTTTTGTG
2860792 TTGCAAATTTGACTTTTGTG
1 TTGCAAATTTGACTTTTGTG
*
2860812 TTGCGAATT
1 TTGCAAATT
2860821 ACAAATTCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (20 bp):
TTGCAAATTTGACTTTTGTG
Found at i:2860834 original size:20 final size:20
Alignment explanation
Indices: 2860811--2860860 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
2860801 TGACTTTTGT
2860811 GTTGCGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
* *
2860831 GTTGCGATTTACAGATTCGC
1 GTTGCGAATTACAAATTCGC
2860851 GTTGCGAATT
1 GTTGCGAATT
2860861 TGGAAATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:2860874 original size:20 final size:20
Alignment explanation
Indices: 2860845--2860902 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
2860835 CGATTTACAG
*
2860845 ATTCGCGTTGCGAATTTGGAA
1 ATTCGAGTTGCGAATTTGG-A
* *
2860866 ATT-GAGTTGTGAAATTGGA
1 ATTCGAGTTGCGAATTTGGA
* *
2860885 GTTCGCGTTGCGAATTTG
1 ATTCGAGTTGCGAATTTG
2860903 TTGGTCATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.36
Consensus pattern (20 bp):
ATTCGAGTTGCGAATTTGGA
Found at i:2864012 original size:19 final size:19
Alignment explanation
Indices: 2863990--2864034 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
2863980 ACAGTAATCA
2863990 ATGGTGTAAAAGGAAGAAG
1 ATGGTGTAAAAGGAAGAAG
2864009 ATGGTGTAAAAGGAAGAAG
1 ATGGTGTAAAAGGAAGAAG
2864028 ATGGTGT
1 ATGGTGT
2864035 GATCGTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (19 bp):
ATGGTGTAAAAGGAAGAAG
Found at i:2864611 original size:18 final size:19
Alignment explanation
Indices: 2864578--2864613 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2864568 AAAGACGATA
*
2864578 AAAAAGAATTATGATTAAG
1 AAAAAGAATTAAGATTAAG
2864597 AAAAAGAA-TAAGATTAA
1 AAAAAGAATTAAGATTAA
2864614 CATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.22
Consensus pattern (19 bp):
AAAAAGAATTAAGATTAAG
Found at i:2864734 original size:21 final size:22
Alignment explanation
Indices: 2864692--2864734 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2864682 GAATTATTAA
*
2864692 AATTAGTAAATTTCAAAATTTT
1 AATTAGTAAAATTCAAAATTTT
2864714 AATTA-TAAAATT-AAAACTTTT
1 AATTAGTAAAATTCAAAA-TTTT
2864735 GAAGTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTAGTAAAATTCAAAATTTT
Found at i:2865055 original size:2 final size:2
Alignment explanation
Indices: 2865048--2865074 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2865038 TAATGTTTGA
2865048 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2865075 ATTTAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2871824 original size:19 final size:18
Alignment explanation
Indices: 2871797--2871845 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
2871787 TAATTAAATC
*
2871797 AGTGTATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
2871815 GAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
2871834 A-TGCATTCGATG
1 AGTGCA-TCGATG
2871846 TTTCAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 16 0.62
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:2871883 original size:21 final size:21
Alignment explanation
Indices: 2871859--2871898 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2871849 CAATTTATTC
2871859 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
2871880 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2871899 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:2874465 original size:24 final size:23
Alignment explanation
Indices: 2874394--2874473 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
2874384 CATGGTCTTG
*
2874394 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
2874417 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
2874438 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
2874462 TGCATCGATGCA
1 TGCATCGATGCA
2874474 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.23
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:2874486 original size:44 final size:42
Alignment explanation
Indices: 2874371--2874493 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 42
2874361 AAAACCCGAC
* *
2874371 GGATGCATCGATGCATGGTCTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGT-TAGTGCATCGATGCACATTCAAG
* * **
2874414 GCATGCATCGGTGCATCATG-CGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAG
*
2874459 GGATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GGATGCATCGATGCATTGTT-AGTGCATCGATGCA
2874494 TTAAGCACAA
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
43 17 0.27
44 28 0.44
45 19 0.30
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
GGATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAG
Found at i:2880342 original size:64 final size:63
Alignment explanation
Indices: 2880246--2880411 Score: 185
Period size: 64 Copynumber: 2.6 Consensus size: 63
2880236 TTGAACTCCT
* *
2880246 AGTGCATCGGTGCACT-AAGAGTGCGTCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-TGAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAATAAATCAG
* * ** * * *
2880307 CCTGGTGCATCGATGCATGTATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-TAAATC
2880372 AG
62 AG
2880374 AGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAG
1 AGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAG
2880412 AGTGCATCGG
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
63 1 0.01
64 76 0.92
66 4 0.05
67 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (63 bp):
AGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAATAAATCAG
Found at i:2880396 original size:19 final size:19
Alignment explanation
Indices: 2880372--2880441 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
2880362 TAATTAAATC
2880372 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
2880391 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
*
2880410 AGAGTGCATCGGTGCATGA
1 AGAGTGCATCGATGCATGA
2880429 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2880442 TTTCAATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 38 0.79
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:2880417 original size:83 final size:83
Alignment explanation
Indices: 2880311--2880473 Score: 229
Period size: 83 Copynumber: 2.0 Consensus size: 83
2880301 AAATAGCCTG
* ** *
2880311 GTGCATCGATGCATGTATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-GA
1 GTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCATGA
2880375 GTGCATCGATGCATGAAGA
66 -TGCATCGATGCATGAAGA
* * * *
2880394 GTGCATCGATGCATGAAGAGTGCATCGGTGCATGAAATGCATTCGATGTTTCAATTTATTCATTG
1 GTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCA-TG
2880459 ATGCATCGATGCATG
65 ATGCATCGATGCATG
2880474 GTATTGATGC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 54 0.77
84 14 0.20
85 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (83 bp):
GTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCATGA
TGCATCGATGCATGAAGA
Found at i:2880479 original size:21 final size:21
Alignment explanation
Indices: 2880455--2880494 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2880445 CAATTTATTC
2880455 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
2880476 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2880495 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:2883526 original size:20 final size:21
Alignment explanation
Indices: 2883503--2883549 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2883493 TATTAATGGG
2883503 TAAACTATGAA-TTTAATACC
1 TAAACTATGAATTTTAATACC
* *
2883523 TAAACTATTAATTTTAGTACC
1 TAAACTATGAATTTTAATACC
2883544 TAAACT
1 TAAACT
2883550 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAACTATGAATTTTAATACC
Found at i:2888083 original size:188 final size:188
Alignment explanation
Indices: 2887766--2888146 Score: 753
Period size: 188 Copynumber: 2.0 Consensus size: 188
2887756 CAAAGTTACG
2887766 CTGGCCTGCGAGTAAGACATCATGCAAAGACAAACAATGGGAGCCTTCTCGGGGAAAGAATTGGT
1 CTGGCCTGCGAGTAAGACATCATGCAAAGACAAACAATGGGAGCCTTCTCGGGGAAAGAATTGGT
2887831 AATGAATAATGCTTCAACACACAGACAGGACGGACATGGATGCTGGCTTTGAAAACAGAAAGATG
66 AATGAATAATGCTTCAACACACAGACAGGACGGACATGGATGCTGGCTTTGAAAACAGAAAGATG
2887896 CTTCTTGGCATCAGACCAATATACTATGAGAGCATGGATTGCAGAACAAGCTGTTGCT
131 CTTCTTGGCATCAGACCAATATACTATGAGAGCATGGATTGCAGAACAAGCTGTTGCT
2887954 CTGGCCTGCGAGTAAGACATCATGCAAAGACAAACAATGGGAGCCTTCTCGGGGAAAGAATTGGT
1 CTGGCCTGCGAGTAAGACATCATGCAAAGACAAACAATGGGAGCCTTCTCGGGGAAAGAATTGGT
2888019 AATGAATAATGCTTCAACACACAGACAGGACGGACATGGATGCTGGCTTTGAAAACAGAAAGATG
66 AATGAATAATGCTTCAACACACAGACAGGACGGACATGGATGCTGGCTTTGAAAACAGAAAGATG
2888084 CTTCTTGGCATCAGACCAATATACTATGAGAGCATGGATTGCAGAACAAGCTGTTGCT
131 CTTCTTGGCATCAGACCAATATACTATGAGAGCATGGATTGCAGAACAAGCTGTTGCT
*
2888142 GTGGC
1 CTGGC
2888147 TGCAAAGATG
Statistics
Matches: 192, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 192 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (188 bp):
CTGGCCTGCGAGTAAGACATCATGCAAAGACAAACAATGGGAGCCTTCTCGGGGAAAGAATTGGT
AATGAATAATGCTTCAACACACAGACAGGACGGACATGGATGCTGGCTTTGAAAACAGAAAGATG
CTTCTTGGCATCAGACCAATATACTATGAGAGCATGGATTGCAGAACAAGCTGTTGCT
Found at i:2889172 original size:21 final size:21
Alignment explanation
Indices: 2889128--2889172 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2889118 GATTTCTAGG
* * *
2889128 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
2889149 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
2889170 CAA
1 CAA
2889173 ACGAATCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:2889245 original size:23 final size:22
Alignment explanation
Indices: 2889197--2889245 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2889187 ACAGAATGTC
2889197 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
2889218 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
2889241 AAGGA
1 AAGGA
2889246 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:2890888 original size:103 final size:103
Alignment explanation
Indices: 2890709--2891129 Score: 770
Period size: 103 Copynumber: 4.1 Consensus size: 103
2890699 GTCGAGGGTC
*
2890709 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
2890774 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
2890812 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
2890877 TTGATCCTTGGCATATGGATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * *
2890915 TATATGGTCCTTCGGGACATATATGTATTCTTTGGAGCATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
2890980 TTGATCCTTGGCATATGTATATGATTCTTAATGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
2891018 TATGTGGTCTTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
2891083 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
2891121 TATGTGGTC
1 TATGTGGTC
2891130 CTTATGGACA
Statistics
Matches: 306, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 306 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:2891179 original size:23 final size:23
Alignment explanation
Indices: 2891149--2891208 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
2891139 ATTATTATAT
2891149 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* **
2891172 GGCACTACAGTGCAATTCTGTGC
1 GGCACTACGGTGCAATTCTACGC
* *
2891195 GACACTTCGGTGCA
1 GGCACTACGGTGCA
2891209 TTTATATGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2894448 original size:23 final size:22
Alignment explanation
Indices: 2894400--2894448 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2894390 ACAGAATGTC
2894400 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
2894421 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
2894444 AAGGA
1 AAGGA
2894449 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:2896221 original size:103 final size:103
Alignment explanation
Indices: 2895915--2896213 Score: 571
Period size: 103 Copynumber: 2.9 Consensus size: 103
2895905 CCTTCGGGAC
*
2895915 ATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGTATAT
1 ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGTATAT
2895980 GATTCTTAAGGAATGATATGTGGTCCTTCGGGACATAT
66 GATTCTTAAGGAATGATATGTGGTCCTTCGGGACATAT
2896018 ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGTATAT
1 ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGTATAT
2896083 GATTCTTAAGGAATGATATGTGGTCCTTCGGGACATAT
66 GATTCTTAAGGAATGATATGTGGTCCTTCGGGACATAT
*
2896121 ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTTGCATATGTATAT
1 ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGTATAT
*
2896186 GATTCTTAAGAAATGATATGTGGTCCTT
66 GATTCTTAAGGAATGATATGTGGTCCTT
2896214 TTGGACATTA
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 193 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
ATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGTATAT
GATTCTTAAGGAATGATATGTGGTCCTTCGGGACATAT
Found at i:2896297 original size:23 final size:23
Alignment explanation
Indices: 2896229--2896289 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2896219 CATTATTATA
*
2896229 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
2896252 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
2896275 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
2896290 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:2906160 original size:39 final size:39
Alignment explanation
Indices: 2906083--2906162 Score: 92
Period size: 40 Copynumber: 2.1 Consensus size: 39
2906073 TGTGCGTTTA
*** *
2906083 TTTAATAAATGAACGAACATGAACAAGATTTTGTGTTCG
1 TTTAATAAATGAACGAACATGAACAAGAGCCTGCGTTCG
2906122 TTTAATTAAATGAACGAACATGAACATAG-GCCT-CGTTCG
1 TTTAA-TAAATGAACGAACATGAACA-AGAGCCTGCGTTCG
2906161 TT
1 TT
2906163 CATTTACGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 12 0.34
40 21 0.60
41 2 0.06
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (39 bp):
TTTAATAAATGAACGAACATGAACAAGAGCCTGCGTTCG
Found at i:2906196 original size:24 final size:24
Alignment explanation
Indices: 2906169--2906224 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
2906159 CGTTCATTTA
2906169 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
2906193 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
2906217 CGTTCGGT
1 CGTTCGGT
2906225 TATGTTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.46
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:2906198 original size:14 final size:14
Alignment explanation
Indices: 2906179--2906231 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
2906169 CGTTCGTGAA
2906179 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2906193 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2906207 CG-T---TTATGTT
1 CGTTCGGTTATGTT
2906217 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2906231 C
1 C
2906232 ATTCATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 24 0.69
ACGTcount: A:0.08, C:0.15, G:0.26, T:0.51
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:2906225 original size:24 final size:24
Alignment explanation
Indices: 2906180--2906231 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
2906170 GTTCGTGAAC
2906180 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCGTTCGGTTAT
*
2906204 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCGTTCGGTTAT
2906228 GTTC
1 GTTC
2906232 ATTCATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.08, C:0.13, G:0.27, T:0.52
Consensus pattern (24 bp):
GTTCGGTTATGTTCGTTCGGTTAT
Found at i:2907111 original size:12 final size:12
Alignment explanation
Indices: 2907094--2907147 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
2907084 TGGGGCAATG
*
2907094 TCGAGCTCGGAA
1 TCGAGCTCAGAA
*
2907106 TCGAGCT-TGAA
1 TCGAGCTCAGAA
2907117 TCGAGCTCAGAA
1 TCGAGCTCAGAA
2907129 TCGAGCTCAGAA
1 TCGAGCTCAGAA
2907141 TCGAGCT
1 TCGAGCT
2907148 TGAATCAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.26
12 29 0.74
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (12 bp):
TCGAGCTCAGAA
Found at i:2907124 original size:23 final size:24
Alignment explanation
Indices: 2907094--2907147 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
2907084 TGGGGCAATG
* *
2907094 TCGAGCTCGGAATCGAGCT-TGAA
1 TCGAGCTCAGAATCGAGCTCAGAA
2907117 TCGAGCTCAGAATCGAGCTCAGAA
1 TCGAGCTCAGAATCGAGCTCAGAA
2907141 TCGAGCT
1 TCGAGCT
2907148 TGAATCAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (24 bp):
TCGAGCTCAGAATCGAGCTCAGAA
Found at i:2907378 original size:16 final size:16
Alignment explanation
Indices: 2907353--2907425 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
2907343 CCAACGTTTA
*
2907353 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
2907369 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
* *
2907385 AGTT-AGTTTATGTTCA
1 TGTTCA-TTTATGTTCG
* *
2907401 TGTTCGTTCATGTTCG
1 TGTTCATTTATGTTCG
2907417 T-TT-ATTTAT
1 TGTTCATTTAT
2907426 TAAATGAATG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
14 4 0.09
15 3 0.07
16 39 0.85
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.56
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:2907508 original size:16 final size:16
Alignment explanation
Indices: 2907487--2907517 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2907477 AAAAATATTT
2907487 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2907503 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
2907518 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2908035 original size:24 final size:23
Alignment explanation
Indices: 2907984--2908035 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
2907974 ATAAAGTAAA
2907984 ATTTATTTTCATAATTTAAACTT
1 ATTTATTTTCATAATTTAAACTT
* *
2908007 TTTTATTTTTATATATTTTAAA-TT
1 ATTTATTTTCATA-A-TTTAAACTT
2908031 ATTTA
1 ATTTA
2908036 ATGAGTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.46
24 7 0.29
25 6 0.25
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTATTTTCATAATTTAAACTT
Found at i:2912282 original size:23 final size:23
Alignment explanation
Indices: 2912256--2912301 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2912246 ATCCAATTCC
*
2912256 ATATTCTGTTTGGCTGGCAGAAA
1 ATATTCTGTTTGGCTCGCAGAAA
* *
2912279 ATATTTTGTTTGGTTCGCAGAAA
1 ATATTCTGTTTGGCTCGCAGAAA
2912302 TGTCAGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (23 bp):
ATATTCTGTTTGGCTCGCAGAAA
Found at i:2916508 original size:26 final size:25
Alignment explanation
Indices: 2916472--2916524 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
2916462 CATCAACCGT
*
2916472 ATTGCATACTCATGTTCTTCCTGTC
1 ATTGCATACTCATGCTCTTCCTGTC
2916497 ATTGCAATACTCATGCTCTTCCTGTC
1 ATTGC-ATACTCATGCTCTTCCTGTC
2916523 AT
1 AT
2916525 GATATCCGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (25 bp):
ATTGCATACTCATGCTCTTCCTGTC
Found at i:2918165 original size:16 final size:16
Alignment explanation
Indices: 2918144--2918175 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2918134 TAAATTTTAT
2918144 TAATATTATAACTATA
1 TAATATTATAACTATA
*
2918160 TAATATTATAATTATA
1 TAATATTATAACTATA
2918176 AAAATAATTA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATATTATAACTATA
Found at i:2918184 original size:12 final size:12
Alignment explanation
Indices: 2918167--2918199 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2918157 ATATAATATT
2918167 ATAATTATAAAA
1 ATAATTATAAAA
2918179 ATAATTATAAAA
1 ATAATTATAAAA
*
2918191 ATAGTTATA
1 ATAATTATA
2918200 TATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
ATAATTATAAAA
Found at i:2927422 original size:30 final size:31
Alignment explanation
Indices: 2927348--2927452 Score: 132
Period size: 30 Copynumber: 3.5 Consensus size: 31
2927338 CATTCTTGAT
* *
2927348 TCTGTAT-GGGATTTATTCCCCGTTCTGACA
1 TCTGTATAGAGATTAATTCCCCGTTCTGACA
*
2927378 -CTGCA-AGAGATTAATTCCCCGCTT-TGACA
1 TCTGTATAGAGATTAATTCCCCG-TTCTGACA
2927407 TCTGTATAG-GATTAATTCCCCGTTCTGACA
1 TCTGTATAGAGATTAATTCCCCGTTCTGACA
2927437 TCTGTAT-GAGATTAAT
1 TCTGTATAGAGATTAAT
2927453 ACTCCATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
29 25 0.38
30 38 0.58
31 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (31 bp):
TCTGTATAGAGATTAATTCCCCGTTCTGACA
Found at i:2928338 original size:30 final size:30
Alignment explanation
Indices: 2928289--2928368 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
2928279 CTTTTAAAAC
*
2928289 TTGCAATATAGTCCCCCAACATTTAGTCCAT
1 TTGCAATATGGT-CCCCAACATTTAGTCCAT
* * *
2928320 TTTCAATATGGTCCCCAACATTTATTCCGT
1 TTGCAATATGGTCCCCAACATTTAGTCCAT
2928350 TTGCAATATGGTCCCCAAC
1 TTGCAATATGGTCCCCAAC
2928369 GTAACTGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 34 0.77
31 10 0.23
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (30 bp):
TTGCAATATGGTCCCCAACATTTAGTCCAT
Found at i:2929754 original size:30 final size:30
Alignment explanation
Indices: 2929720--2929788 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
2929710 GTAGCATTAG
2929720 CAAGTTGAATGATAAAGATGGCTAATTTTT
1 CAAGTTGAATGATAAAGATGGCTAATTTTT
2929750 CAAGTTGAATGATAAAGATGGCTAATTTTT
1 CAAGTTGAATGATAAAGATGGCTAATTTTT
2929780 CAAGTTGAA
1 CAAGTTGAA
2929789 GAAAAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
CAAGTTGAATGATAAAGATGGCTAATTTTT
Found at i:2930821 original size:31 final size:31
Alignment explanation
Indices: 2930785--2930845 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2930775 GTTATGTTGT
2930785 GGACCATATTGCAAACGAAATAAATGTTGGG
1 GGACCATATTGCAAACGAAATAAATGTTGGG
* *
2930816 GGACCATATTGCAAACGGACTAAATGTTGG
1 GGACCATATTGCAAACGAAATAAATGTTGG
2930846 AGGATTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (31 bp):
GGACCATATTGCAAACGAAATAAATGTTGGG
Found at i:2931568 original size:21 final size:21
Alignment explanation
Indices: 2931506--2931574 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
2931496 TAACTCGAGT
* *
2931506 GACCACATATATGTCCTGAAA
1 GACCACATATATGTCCCGAAG
* * * *
2931527 GACCTCGTAGAATTGTTCCGAAG
1 GACCACATA-TA-TGTCCCGAAG
2931550 GACCACATATATGTCCCGAAG
1 GACCACATATATGTCCCGAAG
2931571 GACC
1 GACC
2931575 TCGTAGAACC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
21 20 0.56
22 2 0.06
23 14 0.39
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (21 bp):
GACCACATATATGTCCCGAAG
Found at i:2938098 original size:495 final size:495
Alignment explanation
Indices: 2937162--2938154 Score: 1761
Period size: 495 Copynumber: 2.0 Consensus size: 495
2937152 AAGTGACTCA
* * * *
2937162 CCATCGTTTAAAATACTTTTATGTATTTTCCATAATTTTTCGACCATCGAACATTGTTTGAATCA
1 CCATCATTTAAAATACTTTTATATATTTTCCATAATTTTTCAACCATCGAACATCGTTTGAATCA
* * * *
2937227 ATTACCTTTGGACCGAATTTGTTGAACCGATTACCTGACCCGTTGATCGACCCGACACATTAACT
66 ATTACCTTTGGACCGAATTAGATGAACCGATTACATGACCCGTTGACCGACCCGACACATTAACT
* *
2937292 GACCTGACCCTTTGACCGTTGACTTTTTTCGAATACCTCTACCTTTATGTTTTCGACGTCTTGAG
131 GACCTGACCCTTTGACCGTAGACTTTTTTCGAAGACCTCTACCTTTATGTTTTCGACGTCTTGAG
2937357 TCTGTTTTGCCAAATTATGACCCGAAAGCCCTATTTTGCATCATTTATTGTTTGAAGTCATAATT
196 TCTGTTTTGCCAAATTATGACCCGAAAGCCCTATTTTGCATCATTTATTGTTTGAAGTCATAATT
* *
2937422 ATATTAAGTAAATTGTGGGATTTTAGACTCACATTTGAGTGTTATTTTCTGAAGGTTCTCCTGTG
261 ATATTAAGTAAATTATGGGATTTTAGACTCACATTTGAGTGTTATTTTCTGAAGGTACTCCTGTG
2937487 TCTCCAGTCTCCAAACCGTTCTCCTGTAGGCCTTGATCACTCTCGTTCTGCTCAGTTCGATTATG
326 TCTCCAGTCTCCAAACCGTTCTCCTGTAGGCCTTGATCACTCTCGTTCTGCTCAGTTCGATTATG
* *
2937552 CTTGCTCATCTCAAGATACACGTAAGTTTTGTTTAGTGATTTAATAGTTTATTTCTATTTAGCTG
391 CTTGCTCATCTCAAGATACACGTAAGTTCTATTTAGTGATTTAATAGTTTATTTCTATTTAGCTG
2937617 TTGGCATTCGTTTTCATTTAGGGGTTTTATTTTTAGGTCC
456 TTGGCATTCGTTTTCATTTAGGGGTTTTATTTTTAGGTCC
* *
2937657 CCATCATTTAAAATACTTTTCTATATTTTCCATAATTTTTCAATCATCGAACATCGTTTGAATCA
1 CCATCATTTAAAATACTTTTATATATTTTCCATAATTTTTCAACCATCGAACATCGTTTGAATCA
* * *
2937722 ATTACCTTTGGACCGAATTAGATGAACTGATTACATGACCCGTTGACCGGCCCGACACATTAATT
66 ATTACCTTTGGACCGAATTAGATGAACCGATTACATGACCCGTTGACCGACCCGACACATTAACT
2937787 GACCTGACCCTTTGACCGTAGACTTTTTTCGAAGACCTCTACCTTTATGTTTTCGACGTCTTGAG
131 GACCTGACCCTTTGACCGTAGACTTTTTTCGAAGACCTCTACCTTTATGTTTTCGACGTCTTGAG
2937852 TCTGTTTTGCCAAATTATGACCCGAAAGCCCTATTTTGCATCATTTATTGTTTGAAGTCATAATT
196 TCTGTTTTGCCAAATTATGACCCGAAAGCCCTATTTTGCATCATTTATTGTTTGAAGTCATAATT
* *
2937917 ATGTTAAGTAAATTATGGGATTTTAGACTCACATTTGAGTGTTATTTTCTGAAGGTACTCTTGTG
261 ATATTAAGTAAATTATGGGATTTTAGACTCACATTTGAGTGTTATTTTCTGAAGGTACTCCTGTG
*
2937982 TCTCCAGTCTCCAAACCGTTCTCTTGTAGGCCTTGATCACTCTCGTTCTGCTCAGTTCGATTATG
326 TCTCCAGTCTCCAAACCGTTCTCCTGTAGGCCTTGATCACTCTCGTTCTGCTCAGTTCGATTATG
*
2938047 CTTGCTCATCTCAAGATACGCGTAAGTTCTATTTAGTGATTTAATAGTTTATTTCTATTTAGCTG
391 CTTGCTCATCTCAAGATACACGTAAGTTCTATTTAGTGATTTAATAGTTTATTTCTATTTAGCTG
**
2938112 TTGTTATTCGTTTTCATTTAGGGGTTTTATTTTTAGGTCC
456 TTGGCATTCGTTTTCATTTAGGGGTTTTATTTTTAGGTCC
2938152 CCA
1 CCA
2938155 CTCTGTAGAA
Statistics
Matches: 473, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
495 473 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (495 bp):
CCATCATTTAAAATACTTTTATATATTTTCCATAATTTTTCAACCATCGAACATCGTTTGAATCA
ATTACCTTTGGACCGAATTAGATGAACCGATTACATGACCCGTTGACCGACCCGACACATTAACT
GACCTGACCCTTTGACCGTAGACTTTTTTCGAAGACCTCTACCTTTATGTTTTCGACGTCTTGAG
TCTGTTTTGCCAAATTATGACCCGAAAGCCCTATTTTGCATCATTTATTGTTTGAAGTCATAATT
ATATTAAGTAAATTATGGGATTTTAGACTCACATTTGAGTGTTATTTTCTGAAGGTACTCCTGTG
TCTCCAGTCTCCAAACCGTTCTCCTGTAGGCCTTGATCACTCTCGTTCTGCTCAGTTCGATTATG
CTTGCTCATCTCAAGATACACGTAAGTTCTATTTAGTGATTTAATAGTTTATTTCTATTTAGCTG
TTGGCATTCGTTTTCATTTAGGGGTTTTATTTTTAGGTCC
Found at i:2938545 original size:29 final size:30
Alignment explanation
Indices: 2938389--2938529 Score: 133
Period size: 30 Copynumber: 4.7 Consensus size: 30
2938379 CCGGTTCTAC
* * *
2938389 ATGGGATTTATTCCCCGTTCTGACA-CT-A
1 ATGGGATTAATTCCCCATTCTAACATCTGA
* * *
2938417 TATGGGATTAATTCCCCATTCTGACATTTGC
1 -ATGGGATTAATTCCCCATTCTAACATCTGA
* * * *
2938448 ATGAGATTAGTTCCCCGTTCTAACATCTGC
1 ATGGGATTAATTCCCCATTCTAACATCTGA
**
2938478 ACAGGATTAATTCCCCATTCTAACATCTGA
1 ATGGGATTAATTCCCCATTCTAACATCTGA
* *
2938508 ATGTGATTAATTCCTCATTCTA
1 ATGGGATTAATTCCCCATTCTA
2938530 TTTCTGTATG
Statistics
Matches: 91, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
29 23 0.25
30 68 0.75
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (30 bp):
ATGGGATTAATTCCCCATTCTAACATCTGA
Found at i:2940463 original size:95 final size:95
Alignment explanation
Indices: 2940338--2940527 Score: 344
Period size: 95 Copynumber: 2.0 Consensus size: 95
2940328 TGGTGAAAAG
* *
2940338 TTGTATAACAATTCTACAAGCAAAAATTTGGTTTGGAAGATTTATTGGACAAATTATCTGGAGTC
1 TTGTACAACAATTCTACAAGCAAAAATTTGGTTTGGAAGATTTATTGGACAAATTATCCGGAGTC
*
2940403 AAATACTTCTCAAAAATAAATCCACGACTC
66 AAATACTTCTCAAAAATAAATCCACAACTC
2940433 TTGTACAACAATTCTACAAGCAAAAATTTGGTTTGGAAGATTTATTGGACAAATTATCCGGAGTC
1 TTGTACAACAATTCTACAAGCAAAAATTTGGTTTGGAAGATTTATTGGACAAATTATCCGGAGTC
*
2940498 AAATACTTCTCAAAAATAGATCCACAACTC
66 AAATACTTCTCAAAAATAAATCCACAACTC
2940528 GGATATTGAC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (95 bp):
TTGTACAACAATTCTACAAGCAAAAATTTGGTTTGGAAGATTTATTGGACAAATTATCCGGAGTC
AAATACTTCTCAAAAATAAATCCACAACTC
Found at i:2942474 original size:21 final size:22
Alignment explanation
Indices: 2942448--2942488 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2942438 ATAATCTTTT
*
2942448 GCATGT-ATGAACCTACAACGA
1 GCATGTCATCAACCTACAACGA
*
2942469 GCATGTCATCAACGTACAAC
1 GCATGTCATCAACCTACAAC
2942489 AATAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (22 bp):
GCATGTCATCAACCTACAACGA
Found at i:2959815 original size:2 final size:2
Alignment explanation
Indices: 2959808--2959837 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2959798 TTACCCTCCA
2959808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2959838 GAATTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2963184 original size:42 final size:42
Alignment explanation
Indices: 2963137--2963279 Score: 252
Period size: 42 Copynumber: 3.4 Consensus size: 42
2963127 CCAACGCTCA
*
2963137 TCCACGCCAGCAGCT-GCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAG-TAGCTACCAACAAGCCCCAGAAGCTCCCT
*
2963179 TCCACGCGAGCAGTATCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
2963221 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
2963263 TCCACGCGAGCAGTAGC
1 TCCACGCGAGCAGTAGC
2963280 CCCAAGCCAA
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 1 0.01
42 96 0.99
ACGTcount: A:0.27, C:0.41, G:0.19, T:0.13
Consensus pattern (42 bp):
TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
Found at i:2965300 original size:105 final size:106
Alignment explanation
Indices: 2964972--2966103 Score: 1934
Period size: 106 Copynumber: 10.7 Consensus size: 106
2964962 TGAAAGTTAT
* * * * *
2964972 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
* *
2965037 GTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGT
66 GTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2965078 GTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
2965143 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2965184 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
2965248 GTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2965289 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
2965353 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
**
2965394 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AAAATGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
2965458 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2965499 GTTGTCTGGAGTCCAATGTCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
2965563 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
2965604 GCTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-AGGAAGTTGTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAGTTGTT
2965668 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
65 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
2965710 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
2965775 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
2965816 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
2965881 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
2965922 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
2965987 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
2966028 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
2966093 ATTGACAACCA
66 GTTGACAACCA
2966104 ACTTTTCTTG
Statistics
Matches: 992, Mismatches: 27, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
104 5 0.01
105 395 0.40
106 591 0.60
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
Found at i:2970269 original size:42 final size:42
Alignment explanation
Indices: 2970222--2970364 Score: 252
Period size: 42 Copynumber: 3.4 Consensus size: 42
2970212 CCAACGCTCA
*
2970222 TCCACGCCAGCAGCT-GCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAG-TAGCTACCAACAAGCCCCAGAAGCTCCCT
*
2970264 TCCACGCGAGCAGTATCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
2970306 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
2970348 TCCACGCGAGCAGTAGC
1 TCCACGCGAGCAGTAGC
2970365 CCCAAGCCAA
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 1 0.01
42 96 0.99
ACGTcount: A:0.27, C:0.41, G:0.19, T:0.13
Consensus pattern (42 bp):
TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
Found at i:2971472 original size:11 final size:11
Alignment explanation
Indices: 2971456--2971489 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2971446 TTTAAGTAAT
*
2971456 ATATATATGTG
1 ATATATATATG
2971467 ATATATATATG
1 ATATATATATG
2971478 ATATTATATATG
1 ATA-TATATATG
2971490 GATGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
ATATATATATG
Found at i:2972648 original size:37 final size:37
Alignment explanation
Indices: 2972598--2972678 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
2972588 ACTCGGTCAA
* * **
2972598 AACTCGATAAACGCTTC-ATTCGAGTTGGCTCGACTTT
1 AACTCGATAAACGC-TCGAATCAAGTTGGCTCGACTCG
2972635 AACTCGATAAACGCTCGAATCAAGTTGGCTCGACTCG
1 AACTCGATAAACGCTCGAATCAAGTTGGCTCGACTCG
2972672 AACTCGA
1 AACTCGA
2972679 ACTCAACTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.05
37 37 0.95
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (37 bp):
AACTCGATAAACGCTCGAATCAAGTTGGCTCGACTCG
Found at i:2972920 original size:21 final size:21
Alignment explanation
Indices: 2972869--2972922 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2972859 TTAACTAATC
2972869 TATTATTTT-TTAATAAATAA
1 TATTATTTTATTAATAAATAA
* *
2972889 TA-AATTATTATTAATTAATAA
1 TATTATT-TTATTAATAAATAA
2972910 TATTATTTTATTA
1 TATTATTTTATTA
2972923 CAAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 4 0.14
21 18 0.64
22 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTTTATTAATAAATAA
Found at i:2974788 original size:15 final size:15
Alignment explanation
Indices: 2974768--2974796 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2974758 GCTTGATGGG
2974768 CGGATGCGGGGCGGA
1 CGGATGCGGGGCGGA
2974783 CGGATGCGGGGCGG
1 CGGATGCGGGGCGG
2974797 GTAATGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.21, G:0.62, T:0.07
Consensus pattern (15 bp):
CGGATGCGGGGCGGA
Done.