Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 178 of 186
Found at i:59016481 original size:16 final size:16
Alignment explanation
Indices: 59016462--59016500 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59016452 AATTTTTCCC
*
59016462 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
59016478 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
59016494 TCTTTCC
1 TTTTTCC
59016501 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:59016560 original size:16 final size:17
Alignment explanation
Indices: 59016529--59016574 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
59016519 TCATCCTTTC
*
59016529 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
59016546 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
59016562 TTACTTTATATAT
1 TTTCTTTTTATAT
59016575 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:59016563 original size:10 final size:10
Alignment explanation
Indices: 59016525--59016562 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
59016515 CGTTTCATCC
59016525 TTTCTTTCTT
1 TTTCTTTCTT
59016535 TTTCTATTCTT
1 TTTCT-TTCTT
59016546 TTTCTTT-TT
1 TTTCTTTCTT
59016555 ATTTCTTT
1 -TTTCTTT
59016563 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:59018133 original size:41 final size:41
Alignment explanation
Indices: 59018023--59018170 Score: 122
Period size: 41 Copynumber: 3.6 Consensus size: 41
59018013 ACTGGAGTGT
** * * * * *
59018023 AAACAGGGGCGCGTATGTGCAATTCA-AGGTACCGAAGTCC
1 AAACAGGGGCAAGTATCTACAATTCAGGGGTATCGAAGTAC
* * *
59018063 AAATAGGGGCACA-TATGTGA-AATTCAGGGGTATCGAATTAC
1 AAACAGGGGCA-AGTATCT-ACAATTCAGGGGTATCGAAGTAC
*
59018104 AAACAGGGGCAAGTATCTACAATTTAGGGGTATCGAAGTAC
1 AAACAGGGGCAAGTATCTACAATTCAGGGGTATCGAAGTAC
* * * *
59018145 GAACAGGGGCATGTATTTGCAATTCA
1 AAACAGGGGCAAGTATCTACAATTCA
59018171 TAGAATAATT
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 22 0.26
41 64 0.74
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCAAGTATCTACAATTCAGGGGTATCGAAGTAC
Found at i:59028891 original size:6 final size:6
Alignment explanation
Indices: 59028880--59028907 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
59028870 GGTTTTCTCC
59028880 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
59028908 ATTTGTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:59029441 original size:120 final size:120
Alignment explanation
Indices: 59029245--59029471 Score: 355
Period size: 120 Copynumber: 1.9 Consensus size: 120
59029235 AAGAGGTCTG
*
59029245 ATAGCACCTTATTTAATAAGGGGGACAAAAAACCCTAGTAAAATTAACTAGGGTTGTCACCCCCT
1 ATAGCACCTTATTTAATAAGGGAGACAAAAAACCCTAGTAAAATTAACTAGGGTTGTCACCCCCT
*
59029310 ACAACCTAGTTGAACTAGGATTCCATTTTTCTAGTTGAAATATGGAGGAGGTCCA
66 ACAACCTAGTTGAAATAGGATTCCATTTTTCTAGTTGAAATATGGAGGAGGTCCA
* ** * * * *
59029365 ATAGCCCCTTATTTAATAAGGGAGACAGCAAGCCCTAGTATAATTAACTTGGGTTGTTACCCCCT
1 ATAGCACCTTATTTAATAAGGGAGACAAAAAACCCTAGTAAAATTAACTAGGGTTGTCACCCCCT
* *
59029430 ACAACCTAGTTGAAATAGGATTTCGTTTTTCTAGTTGAAATA
66 ACAACCTAGTTGAAATAGGATTCCATTTTTCTAGTTGAAATA
59029472 AACTTCTATA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (120 bp):
ATAGCACCTTATTTAATAAGGGAGACAAAAAACCCTAGTAAAATTAACTAGGGTTGTCACCCCCT
ACAACCTAGTTGAAATAGGATTCCATTTTTCTAGTTGAAATATGGAGGAGGTCCA
Found at i:59036607 original size:44 final size:45
Alignment explanation
Indices: 59036534--59036627 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
59036524 TAGAATTCCA
* * * *
59036534 ATATGTGTTTTTGTGTAAGATCACGTCTGGGACATTGGCATCGTT
1 ATATGCGTTTTTGTGTAAGACCACATCTGGGACATTGGCATCGAT
**
59036579 ATATGCGTTTTT-TGTAAGACCACATCTGGGATGTTGGCATCGAT
1 ATATGCGTTTTTGTGTAAGACCACATCTGGGACATTGGCATCGAT
59036623 ATATG
1 ATATG
59036628 TGGTTACATG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 32 0.74
45 11 0.26
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (45 bp):
ATATGCGTTTTTGTGTAAGACCACATCTGGGACATTGGCATCGAT
Found at i:59036653 original size:45 final size:44
Alignment explanation
Indices: 59036547--59036709 Score: 138
Period size: 44 Copynumber: 3.8 Consensus size: 44
59036537 TGTGTTTTTG
* * ***
59036547 TGTAAGATCACGTCTGGGACATTGGCATCGTTATATGCGTTTTT
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATATGCGTTACA
* ** *
59036591 TGTAAGACCACATCTGGGATGTTGGCATCGATATATGTGGTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATATG-CGTTACA
* * * * *
59036636 TGTAAGACCATGTCTGGGACATCGACATCG-TAT-TG-ATT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATATGCGTTACA
*
59036676 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATAT
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATAT
59036710 GAGATAGCAT
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
40 26 0.27
41 5 0.05
43 2 0.02
44 35 0.37
45 27 0.28
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATATGCGTTACA
Found at i:59042936 original size:17 final size:17
Alignment explanation
Indices: 59042914--59042949 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
59042904 GGCAAGGATT
59042914 AACTCACTTGGTGAAAC
1 AACTCACTTGGTGAAAC
59042931 AACTCACTTGGTGAAAC
1 AACTCACTTGGTGAAAC
59042948 AA
1 AA
59042950 TTATGGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (17 bp):
AACTCACTTGGTGAAAC
Found at i:59050704 original size:18 final size:18
Alignment explanation
Indices: 59050680--59050870 Score: 97
Period size: 19 Copynumber: 10.3 Consensus size: 18
59050670 AAGAAACATT
59050680 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
*
59050698 ATGAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
*
59050716 ATCAGAATCAG-GTGACAAA
1 ATCAGAATCAGAAT--CAAA
* * *
59050735 ATTAAAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
* *
59050753 ATCAGAATTAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAAA
* *
59050772 ATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA--AA
*
59050792 A-CAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
* *
59050809 ACCAGAATCAGAATTAAGTA
1 ATCAGAATCAGAATCAA--A
* **
59050829 A-CAGAATCAAAATCAGT
1 ATCAGAATCAGAATCAAA
*
59050846 ATCAGGTAAT-AGAATCAGA
1 ATCA-G-AATCAGAATCAAA
59050865 ATCAGA
1 ATCAGA
59050871 GTGTGAATGC
Statistics
Matches: 135, Mismatches: 23, Indels: 31
0.71 0.12 0.16
Matches are distributed among these distances:
17 6 0.04
18 54 0.40
19 65 0.48
20 10 0.07
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:59050710 original size:6 final size:6
Alignment explanation
Indices: 59050680--59050870 Score: 124
Period size: 6 Copynumber: 31.0 Consensus size: 6
59050670 AAGAAACATT
* * *
59050680 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
59050727 GTGACAAA ATTAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
59050778 ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAAGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A
* *
59050829 A-CAGA ATCAAA ATCAGT ATCAGGTA AT-AGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
59050871 GTGTGAATGC
Statistics
Matches: 144, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 11 0.08
6 112 0.78
7 13 0.09
8 8 0.06
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:59050744 original size:37 final size:37
Alignment explanation
Indices: 59050694--59050765 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
59050684 GAACTAGAAT
*
59050694 CAAAATGAGAATCAGAATCAAAATCAGAATCAGGTGA
1 CAAAATGAAAATCAGAATCAAAATCAGAATCAGGTGA
* * *
59050731 CAAAATTAAAATCAGAATCAGAATCAGAATTAGGT
1 CAAAATGAAAATCAGAATCAAAATCAGAATCAGGT
59050766 AACAGAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.19
Consensus pattern (37 bp):
CAAAATGAAAATCAGAATCAAAATCAGAATCAGGTGA
Found at i:59050771 original size:25 final size:25
Alignment explanation
Indices: 59050743--59050809 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
59050733 AAATTAAAAT
*
59050743 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
59050768 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
59050793 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
59050810 CCAGAATCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:59050775 original size:31 final size:30
Alignment explanation
Indices: 59050740--59050850 Score: 118
Period size: 31 Copynumber: 3.6 Consensus size: 30
59050730 ACAAAATTAA
59050740 AATCAGAATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGAATTA-GTAACAG
* *
59050771 AATCAGAATCAGTATCAGGTAA-CAG-AATCAG
1 AATCAGAATCAGAATCA-G-AATTAGTAA-CAG
*
59050802 AATCAGAACCAGAATCAGAATTAAGTAACAG
1 AATCAGAATCAGAATCAGAATT-AGTAACAG
* *
59050833 AATCAAAATCAGTATCAG
1 AATCAGAATCAGAATCAG
59050851 GTAATAGAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 55 0.83
32 4 0.06
33 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (30 bp):
AATCAGAATCAGAATCAGAATTAGTAACAG
Found at i:59050830 original size:37 final size:37
Alignment explanation
Indices: 59050768--59050844 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
59050758 AATTAGGTAA
* * * *
59050768 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAAGTAACAGAATCAAAAT
*
59050805 CAGAACCAGAATCAGAATTAAGTAACAGAATCAAAAT
1 CAGAACCAGAATCAGAATCAAGTAACAGAATCAAAAT
59050842 CAG
1 CAG
59050845 TATCAGGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAAGTAACAGAATCAAAAT
Found at i:59050842 original size:25 final size:25
Alignment explanation
Indices: 59050768--59050870 Score: 64
Period size: 25 Copynumber: 4.4 Consensus size: 25
59050758 AATTAGGTAA
*
59050768 CAGAATCAGAATC-AGTATCAGGTAA-
1 CAGAATCAGAATCAAGTAACA-G-AAT
59050793 CAGAATCAGAATC-AG-AACCAGAAT
1 CAGAATCAGAATCAAGTAA-CAGAAT
59050817 CAGAAT-----T-AAGTAACAGAAT
1 CAGAATCAGAATCAAGTAACAGAAT
* * * *
59050836 CAAAATCAGTATCAGGTAATAGAAT
1 CAGAATCAGAATCAAGTAACAGAAT
59050861 CAGAATCAGA
1 CAGAATCAGA
59050871 GTGTGAATGC
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
19 14 0.23
20 2 0.03
23 2 0.03
24 9 0.15
25 35 0.56
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAAGTAACAGAAT
Found at i:59051157 original size:27 final size:26
Alignment explanation
Indices: 59051109--59051160 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59051099 GCGAGGCTGC
*
59051109 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
59051135 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
59051161 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59051418 original size:27 final size:27
Alignment explanation
Indices: 59051388--59051673 Score: 365
Period size: 27 Copynumber: 10.6 Consensus size: 27
59051378 AACACCCTAG
* * *
59051388 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
59051415 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
59051442 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
59051469 GGGTAAAACGATAATTCTATAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
**
59051496 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
59051523 GGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
59051550 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
59051577 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
**
59051604 GGGTAAAAAAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** *
59051631 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
59051658 GGGTAAAACGATAATT
1 GGGTAAAACGGTAATT
59051674 TTACAAACCA
Statistics
Matches: 225, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:59051675 original size:81 final size:81
Alignment explanation
Indices: 59051388--59051673 Score: 403
Period size: 81 Copynumber: 3.5 Consensus size: 81
59051378 AACACCCTAG
* * * *
59051388 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAAAG
59051453 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * **
59051469 GGGTAAAACGATAATTCTATAAATCAAGGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAATG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAAAA
*
59051533 GTAATTTTGTAAATTGA
65 GTAATTTTGTAAATCGA
* * * *
59051550 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAAAG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAAAG
*
59051615 TAATTCTGTAAATCGA
66 TAATTTTGTAAATCGA
* *
59051631 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGATAATT
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGATAATT
59051674 TTACAAACCA
Statistics
Matches: 180, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 179 0.99
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (81 bp):
GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAAAG
TAATTTTGTAAATCGA
Found at i:59051700 original size:81 final size:78
Alignment explanation
Indices: 59051388--59051707 Score: 243
Period size: 81 Copynumber: 3.9 Consensus size: 78
59051378 AACACCCTAG
* * * * * **
59051388 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATC-GAGGGTAAAACA
1 GGGTAAAA-AGTAATTCTATAAATCAAGGGTAAAACGATAATTTTA-AAACCAG-GGGTAAATGA
59051452 GTAATTTTGTAAATCGA
63 -TAATTTTGTAAATCGA
* * * *
59051469 GGGTAAAACGATAATTCTATAAATCAAGGGTAAAA-TAGTAATTCTGTAAATCGA-GGGTAAAAT
1 GGGTAAAAAG-TAATTCTATAAATCAAGGGTAAAACGA-TAATT-T-TAAAACCAGGGGT-AAAT
* *
59051532 GGTAATTTTGTAAATTGA
61 GATAATTTTGTAAATCGA
* * * * * **
59051550 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAAAA
1 GGGTAAAA-AGTAATTCTATAAATCAAGGGTAAAACGATAATTTT-AAAACCAG-GGGTAAATGA
*
59051614 GTAATTCTGTAAATCGA
63 -TAATTTTGTAAATCGA
* **
59051631 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAACCAGGGGTATTTTGA
1 GGGTAAAA-AGTAATTCTATAAATCAAGGGTAAAACGATAATTTTA-AAACCAGGGGTA-AATGA
*
59051696 TAATTTGGTAAA
63 TAATTTTGTAAA
59051708 CTAAAGTATT
Statistics
Matches: 186, Mismatches: 38, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
79 1 0.01
80 8 0.04
81 167 0.90
82 8 0.04
83 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (78 bp):
GGGTAAAAAGTAATTCTATAAATCAAGGGTAAAACGATAATTTTAAAACCAGGGGTAAATGATAA
TTTTGTAAATCGA
Found at i:59055252 original size:23 final size:22
Alignment explanation
Indices: 59055221--59055263 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
59055211 GTACTCCTTA
* *
59055221 CCAAATCATGCCAAATCATAAG
1 CCAAATCATACCAAAACATAAG
59055243 CCAAACTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
59055264 TGATTTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.30, G:0.05, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:59065122 original size:46 final size:46
Alignment explanation
Indices: 59065055--59065180 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
59065045 AACCCGCCCC
* * *
59065055 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59065101 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59065147 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59065181 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:59065199 original size:46 final size:45
Alignment explanation
Indices: 59065057--59065199 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
59065047 CCCGCCCCTA
* ** * *
59065057 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
59065102 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
59065148 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
59065195 AGTGA
1 AGTGA
59065200 CATGTCACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 82 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:59074291 original size:21 final size:21
Alignment explanation
Indices: 59074265--59074306 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
59074255 TTTTGAATCA
59074265 ATACAAGAGGAATGGACTATG
1 ATACAAGAGGAATGGACTATG
59074286 ATACAAGAGGAATGGACTATG
1 ATACAAGAGGAATGGACTATG
59074307 TCTATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.19
Consensus pattern (21 bp):
ATACAAGAGGAATGGACTATG
Found at i:59077293 original size:35 final size:35
Alignment explanation
Indices: 59077254--59077323 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
59077244 TCTGTTGCTA
59077254 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
1 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
59077289 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
1 GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
59077324 AATAATAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
GAAAGAACTTATAGTTACATGCATCTGTAGTCAAT
Found at i:59078876 original size:37 final size:37
Alignment explanation
Indices: 59078808--59078880 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
59078798 TAAAAAACAT
* *
59078808 TTTAATATAATTATATTAAGAATGTTATTAAATTATA
1 TTTAATATAATTATATTAAGAATATGATTAAATTATA
*
59078845 TTTAATAATAATTATATTAA-AATATGGTTAAATTAT
1 TTTAAT-ATAATTATATTAAGAATATGATTAAATTAT
59078881 TTATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 19 0.59
38 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (37 bp):
TTTAATATAATTATATTAAGAATATGATTAAATTATA
Found at i:59079096 original size:46 final size:44
Alignment explanation
Indices: 59079012--59079103 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 44
59079002 ATATCTATTC
*
59079012 CATTCAACCAAACATAATAATACTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACATAATAATACTATTACAGCTCTATTCCATTA
*
59079056 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACATAAT-AA-TACT-ATTACAGCTCTATTCCATTA
59079102 CA
1 CA
59079104 GTCTTATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.37
45 4 0.09
46 21 0.49
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACATAATAATACTATTACAGCTCTATTCCATTA
Found at i:59079103 original size:16 final size:16
Alignment explanation
Indices: 59079082--59079121 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
59079072 TGAATTACTG
59079082 ATTACAG-CTCTATTCC
1 ATTACAGTCT-TATTCC
59079098 ATTACAGTCTTATTCC
1 ATTACAGTCTTATTCC
*
59079114 ATTCCAGT
1 ATTACAGT
59079122 GAACCAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTCTTATTCC
Found at i:59079341 original size:29 final size:30
Alignment explanation
Indices: 59079279--59079342 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
59079269 TAAAATAAAT
*
59079279 AAAAACTATTGAAATTTAAAAAGAAAAACT
1 AAAAACTATTGAAATTTAAAAAGAAAAACG
*
59079309 AAAAA-TATTTAAA-TTATAAAAGATAAAA-G
1 AAAAACTATTGAAATTTA-AAAAGA-AAAACG
59079338 AAAAA
1 AAAAA
59079343 AACTTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.10
29 18 0.60
30 9 0.30
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAAACTATTGAAATTTAAAAAGAAAAACG
Found at i:59094882 original size:28 final size:29
Alignment explanation
Indices: 59094834--59094899 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
59094824 AAGTCTACAT
*
59094834 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
59094862 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
59094891 ACATTCATA
1 ACATTCATA
59094900 GTCATGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:59097740 original size:42 final size:43
Alignment explanation
Indices: 59097667--59097769 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
59097657 ACATGTTATA
* * * *
59097667 CTTTAGTTTATCTGATGATACACTGTTTGTG-CAGTATAATTC
1 CTTTAGTTTATCCGATGACACACTGTGTGTGCCAATATAATTC
* * *
59097709 CTTT-GATTTATTCGATGACACATTGTGTGTGCCAATATAATTG
1 CTTTAG-TTTATCCGATGACACACTGTGTGTGCCAATATAATTC
59097752 CTTTAGTTTATCCGATGA
1 CTTTAGTTTATCCGATGA
59097770 TGCACTACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.02
42 24 0.48
43 24 0.48
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (43 bp):
CTTTAGTTTATCCGATGACACACTGTGTGTGCCAATATAATTC
Found at i:59097762 original size:43 final size:42
Alignment explanation
Indices: 59097667--59097769 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
59097657 ACATGTTATA
* * *
59097667 CTTTAGTTTA-TCTGATGATACACTGTTTGTGCAGTATAATTC
1 CTTTAGTTTATTC-GATGACACACTGTGTGTGCAATATAATTC
* *
59097709 CTTT-GATTTATTCGATGACACATTGTGTGTGCCAATATAATTG
1 CTTTAG-TTTATTCGATGACACACTGTGTGTG-CAATATAATTC
*
59097752 CTTTAGTTTATCCGATGA
1 CTTTAGTTTATTCGATGA
59097770 TGCACTACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 23 0.45
43 26 0.51
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (42 bp):
CTTTAGTTTATTCGATGACACACTGTGTGTGCAATATAATTC
Found at i:59110357 original size:92 final size:94
Alignment explanation
Indices: 59110188--59110357 Score: 218
Period size: 92 Copynumber: 1.8 Consensus size: 94
59110178 GACCTGGTTA
* ** *
59110188 GGCCCTACCAATTGGATGCATGCAGGCCTTGTAGTGGGGGCTCATTAAAAGGGCTCATAAGGGAA
1 GGCCCTACCAATTGGATGCATGCAGGCCTTGTAGTAGGGGCTCACCAAAAGGGCTCACAAGGGAA
* * *
59110253 GTTCGCGGTCCTATTTTTCAACCTAATTG
66 ATTCACGATCCTATTTTTCAACCTAATTG
* * * *
59110282 GGCCCTACC-ATTGGATGCGTGTAGG-CTTGTAGTAGGGGTTCGCCAAAAGGGCTCACAAGGGAA
1 GGCCCTACCAATTGGATGCATGCAGGCCTTGTAGTAGGGGCTCACCAAAAGGGCTCACAAGGGAA
*
59110345 ATTCATGATCCTA
66 ATTCACGATCCTA
59110358 ATTCGCATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
92 41 0.64
93 14 0.22
94 9 0.14
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (94 bp):
GGCCCTACCAATTGGATGCATGCAGGCCTTGTAGTAGGGGCTCACCAAAAGGGCTCACAAGGGAA
ATTCACGATCCTATTTTTCAACCTAATTG
Found at i:59112340 original size:16 final size:16
Alignment explanation
Indices: 59112319--59112387 Score: 58
Period size: 16 Copynumber: 4.5 Consensus size: 16
59112309 ATTAAAATAA
59112319 AATCCTAAATTTAAAT
1 AATCCTAAATTTAAAT
* *
59112335 AATCCTAAAAATAAAGAT
1 AATCCT-AAATTTAA-AT
*
59112353 AAT--TAAA-AT-AA-
1 AATCCTAAATTTAAAT
59112364 AATCCTAAATTTAAAT
1 AATCCTAAATTTAAAT
59112380 AATCCTAA
1 AATCCTAA
59112388 TAATTATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
11 3 0.07
12 1 0.02
13 5 0.12
14 1 0.02
15 5 0.12
16 15 0.37
17 6 0.15
18 5 0.12
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (16 bp):
AATCCTAAATTTAAAT
Found at i:59112350 original size:45 final size:45
Alignment explanation
Indices: 59112301--59112387 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
59112291 TACATTTAAT
59112301 TAAAGATAATTAAAATAAAATCCTAAATTTAAATAATCCTAAAAA
1 TAAAGATAATTAAAATAAAATCCTAAATTTAAATAATCCTAAAAA
59112346 TAAAGATAATTAAAATAAAATCCTAAATTTAAATAATCCTAA
1 TAAAGATAATTAAAATAAAATCCTAAATTTAAATAATCCTAA
59112388 TAATTATCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (45 bp):
TAAAGATAATTAAAATAAAATCCTAAATTTAAATAATCCTAAAAA
Found at i:59112408 original size:15 final size:15
Alignment explanation
Indices: 59112388--59112417 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59112378 ATAATCCTAA
*
59112388 TAATTATCTTAATAT
1 TAATTATCCTAATAT
59112403 TAATTATCCTAATAT
1 TAATTATCCTAATAT
59112418 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:59114317 original size:137 final size:135
Alignment explanation
Indices: 59113952--59114606 Score: 551
Period size: 137 Copynumber: 4.9 Consensus size: 135
59113942 CGCTCTTAGT
* ** * * * * *
59113952 TGATGTCATAAAGGTTTATCAGTTTAAGATTGCAACCTCCAAAGCAA-TTGTGAACCTATGCTTC
1 TGATGTCATAAAGGTTTGTTGGTTTAAGATCGCAACCTCCAAAGCAACTAGAG-ACCTACGCTCC
* * * *
59114016 CAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCGACACAGCTAGC-AGGCCTATG
65 CAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCAACACAGCTAACGA-ACCTA-G
* **
59114080 CTCCTAGT
128 CTCCCAAC
** * * *
59114088 TGATGTCAT-AAGGTTTGTTTTTTTAAGATCGTAACCTCTAAAG---CTAGTAGACCTA-GCTCT
1 TGATGTCATAAAGGTTTGTTGGTTTAAGATCGCAACCTCCAAAGCAACTAG-AGACCTACGCTCC
* ** * * *** * * * *
59114148 TAGCTAACATTACAAGAGCTCATGGAGTTAAGCTCCCAGGTCCGACATAGCTAACGAACCTAGGC
65 CAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCAACACAGCTAACGAACCTA-GC
59114213 TCCCAAC
129 TCCCAAC
** * ***
59114220 TGATGTCATAAAATTTTGTTTGTTTAAGATTATAACCTCCAAAGCAACTAGCAGACCTACGCTCC
1 TGATGTCATAAAGGTTTGTTGGTTTAAGATCGCAACCTCCAAAGCAACTAG-AGACCTACGCTCC
* * ** *
59114285 CAATTGACATTATAATAGCTCGCAGAGTTAAGCTCACAGCT----C-CAGCTAGTGGACCTAGCT
65 CAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCAACACAGCTAACGAACCTAGCT
59114345 CCCAAC
130 CCCAAC
* * * *
59114351 TAATGTCATAAAGGTTTATCGGTTTAAGATCGCAATCTCCAAAGCAACTAGCAGACCTACGCTCC
1 TGATGTCATAAAGGTTTGTTGGTTTAAGATCGCAACCTCCAAAGCAACTAG-AGACCTACGCTCC
* * * * * * * * ** *
59114416 CAACTAACATTATAAGAACCCGTAAAGTTAAGCTTGCAGCTCCAACACAGTTAGTGGACCTACGC
65 CAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCAACACAGCTAACGAACCTA-GC
59114481 TCCCAAC
129 TCCCAAC
* ** * * *
59114488 TGATGTCATAAAGTTTTGTTGGTAAAAGATCACAACCTCTAAAGCAGCTAGAGAACCTACGCTCC
1 TGATGTCATAAAGGTTTGTTGGTTTAAGATCGCAACCTCCAAAGCAACTAGAG-ACCTACGCTCC
* *
59114553 CAATTGACATTATAAGAGCTCACAGAGTTAAGCTCGCAGATCCAACACAGCTAA
65 CAATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCAACACAGCTAA
59114607 AAAGGCTATC
Statistics
Matches: 413, Mismatches: 91, Indels: 29
0.77 0.17 0.05
Matches are distributed among these distances:
131 96 0.23
132 77 0.19
133 37 0.09
134 1 0.00
135 28 0.07
136 36 0.09
137 138 0.33
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (135 bp):
TGATGTCATAAAGGTTTGTTGGTTTAAGATCGCAACCTCCAAAGCAACTAGAGACCTACGCTCCC
AATTGACATTATAAGAGCTCGCAGAGTTAAGCTCGCAGCTCCAACACAGCTAACGAACCTAGCTC
CCAAC
Found at i:59114425 original size:268 final size:264
Alignment explanation
Indices: 59113973--59114596 Score: 662
Period size: 268 Copynumber: 2.3 Consensus size: 264
59113963 AGGTTTATCA
* * * * * *
59113973 GTTTAAGATTGCAACCTCCAAAGCAA-TTGTGAACCTATGCTTCCAATTGACATTACAAGAGCTC
1 GTTTAAGATTACAACCTCCAAAGCAACTAGAGAACCTACGCTCCCAATTGACATTATAAGAGCTC
* ** *
59114037 GCAGAGTTAAGCTCGCAGCTCCGACACAGCTAGCAGGCCTATGCTCCTAGTTGATGTCATAAGGT
66 GCAGAGTTAAGCTCGCAGCT----C-CAGCTAGCAGGCCTATGCTCCCAACTAATGTCATAAGGT
* *** * * * ** * *
59114102 TTGTTTTTTTAAGATCGTAACCTCTAAAGCTAGTAGACCTAGCTCTTAGCTAACATTACAAGAGC
126 TTATCGGTTTAAGATCGCAACCTCCAAAGCTAGCAGACCTAGCTCCCAACTAACATTACAAGAAC
* ** * * * *
59114167 TCATGGAGTTAAGCTCCCAGGTCCGACATAGCTAACGAACCTAGGCTCCCAACTGATGTCATAAA
191 CCATAAAGTTAAGCTCCCAGCTCCAACACAGCTAACGAACCTACGCTCCCAACTGATGTCATAAA
*
59114232 ATTTTGTTT
256 ATTTTGTTG
* *
59114241 GTTTAAGATTATAACCTCCAAAGCAACTAGCAG-ACCTACGCTCCCAATTGACATTATAATAGCT
1 GTTTAAGATTACAACCTCCAAAGCAACTAG-AGAACCTACGCTCCCAATTGACATTATAAGAGCT
* *
59114305 CGCAGAGTTAAGCTCACAGCTCCAGCTAG-TGGACCTA-GCTCCCAACTAATGTCATAAAGGTTT
65 CGCAGAGTTAAGCTCGCAGCTCCAGCTAGCAGG-CCTATGCTCCCAACTAATGTCAT-AAGGTTT
* *
59114368 ATCGGTTTAAGATCGCAATCTCCAAAGCAACTAGCAGACCTACGCTCCCAACTAACATTATAAGA
128 ATCGGTTTAAGATCGCAACCTCCAAAG---CTAGCAGACCTA-GCTCCCAACTAACATTACAAGA
* ** * ** *
59114433 ACCCGTAAAGTTAAGCTTGCAGCTCCAACACAGTTAGTGGACCTACGCTCCCAACTGATGTCATA
189 ACCCATAAAGTTAAGCTCCCAGCTCCAACACAGCTAACGAACCTACGCTCCCAACTGATGTCATA
*
59114498 AAGTTTTGTTG
254 AAATTTTGTTG
** * * *
59114509 GTAAAAGATCACAACCTCTAAAGCAGCTAGAGAACCTACGCTCCCAATTGACATTATAAGAGCTC
1 GTTTAAGATTACAACCTCCAAAGCAACTAGAGAACCTACGCTCCCAATTGACATTATAAGAGCTC
* *
59114574 ACAGAGTTAAGCTCGCAGATCCA
66 GCAGAGTTAAGCTCGCAGCTCCA
59114597 ACACAGCTAA
Statistics
Matches: 294, Mismatches: 53, Indels: 18
0.81 0.15 0.05
Matches are distributed among these distances:
263 16 0.05
264 38 0.13
265 1 0.00
267 13 0.04
268 176 0.60
269 49 0.17
270 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (264 bp):
GTTTAAGATTACAACCTCCAAAGCAACTAGAGAACCTACGCTCCCAATTGACATTATAAGAGCTC
GCAGAGTTAAGCTCGCAGCTCCAGCTAGCAGGCCTATGCTCCCAACTAATGTCATAAGGTTTATC
GGTTTAAGATCGCAACCTCCAAAGCTAGCAGACCTAGCTCCCAACTAACATTACAAGAACCCATA
AAGTTAAGCTCCCAGCTCCAACACAGCTAACGAACCTACGCTCCCAACTGATGTCATAAAATTTT
GTTG
Found at i:59116732 original size:81 final size:81
Alignment explanation
Indices: 59116600--59116748 Score: 178
Period size: 81 Copynumber: 1.8 Consensus size: 81
59116590 ACCTGGTTGA
* * **
59116600 GCCCTACCAGTTAGATGTGTTAAGGCCTTGTAGTGGGGGTTTATCAAAAGGGCTCGTTAGGGAAG
1 GCCCTACCAGTTAGATGTGTTAAGACCTTGTAGTGGGGGTTGATCAAAAGGGCTCGCAAGGGAAG
59116665 TTCGTGACCTGATCAG
66 TTCGTGACCTGATCAG
* * * *
59116681 GCCCTACCAGTT-GAT-TGTATGCAGACCTTGTAGTGGGGGTTCGCT-AGAAGGGCTTGCAAGGG
1 GCCCTACCAGTTAGATGTGT-T-AAGACCTTGTAGTGGGGGTT-GATCAAAAGGGCTCGCAAGGG
59116743 AAGTTC
63 AAGTTC
59116749 ACGGTCCTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
79 3 0.05
80 4 0.07
81 49 0.86
82 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (81 bp):
GCCCTACCAGTTAGATGTGTTAAGACCTTGTAGTGGGGGTTGATCAAAAGGGCTCGCAAGGGAAG
TTCGTGACCTGATCAG
Found at i:59121167 original size:24 final size:27
Alignment explanation
Indices: 59121140--59121193 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 27
59121130 TAATGAGAAT
59121140 CATTAATATCT-TAAGT-TTTTT-TTA
1 CATTAATATCTATAAGTATTTTTGTTA
* *
59121164 CATTATTATTTATAAGTATTTTTGTTA
1 CATTAATATCTATAAGTATTTTTGTTA
59121191 CAT
1 CAT
59121194 AAAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 5 0.20
26 5 0.20
27 6 0.24
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (27 bp):
CATTAATATCTATAAGTATTTTTGTTA
Found at i:59126750 original size:44 final size:44
Alignment explanation
Indices: 59126685--59126841 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 44
59126675 TGTGTTTTCG
* *
59126685 TGTAAGACCACATCTAGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGATTTACA
* * *
59126729 TATAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTT-CG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTACA
***
59126771 TGTAAGACCTTGTCTAGGGTA-G-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCACATCT-GGG-ACGTTGGCATCGATATTTGATTTACA
*
59126814 TGTAAGACTACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
59126842 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 38 0.41
44 27 0.29
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTACA
Found at i:59129027 original size:19 final size:19
Alignment explanation
Indices: 59128980--59129031 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
59128970 TATGCGCTTA
* *
59128980 TGTGCCAAGATACACCTTG
1 TGTGCCAGGATGCACCTTG
59128999 TGTGCCAGGATGCACCTTG
1 TGTGCCAGGATGCACCTTG
**
59129018 TGTGTTAGGATGCA
1 TGTGCCAGGATGCA
59129032 TTTCGTGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (19 bp):
TGTGCCAGGATGCACCTTG
Found at i:59136201 original size:47 final size:47
Alignment explanation
Indices: 59135864--59136189 Score: 629
Period size: 47 Copynumber: 7.0 Consensus size: 47
59135854 NNNNTATATA
59135864 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59135911 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59135958 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59136005 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59136052 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59136099 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
59136146 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAA-A-GTGTAT
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
59136190 AAATGTGATA
Statistics
Matches: 278, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 271 0.97
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:59141896 original size:24 final size:24
Alignment explanation
Indices: 59141867--59141914 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
59141857 CCAAGCATGC
59141867 TCAACATTTGAGAATCGTATTCAG
1 TCAACATTTGAGAATCGTATTCAG
59141891 TCAACATTTGAGAATCGTATTCAG
1 TCAACATTTGAGAATCGTATTCAG
59141915 ACTTCGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (24 bp):
TCAACATTTGAGAATCGTATTCAG
Found at i:59149650 original size:16 final size:18
Alignment explanation
Indices: 59149629--59149661 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59149619 TGTTTTTGTA
59149629 TGAATG-ATAT-TATTAT
1 TGAATGAATATCTATTAT
59149645 TGAATGAATATCTATTA
1 TGAATGAATATCTATTA
59149662 ATGTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (18 bp):
TGAATGAATATCTATTAT
Found at i:59150644 original size:23 final size:24
Alignment explanation
Indices: 59150613--59150664 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
59150603 CCGACCTCTA
*
59150613 TATTTAAATGATAAAATAAT-TTT
1 TATTAAAATGATAAAATAATATTT
* *
59150636 TATTAAAATTATAAAATTATATTT
1 TATTAAAATGATAAAATAATATTT
59150660 TATTA
1 TATTA
59150665 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTAAAATGATAAAATAATATTT
Found at i:59152368 original size:3 final size:3
Alignment explanation
Indices: 59152362--59152398 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
59152352 AGAGATGATG
59152362 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
59152399 GAGATCAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:59163611 original size:22 final size:22
Alignment explanation
Indices: 59163584--59163630 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
59163574 TAGTGTATCC
59163584 AAAACATTAGGAAACAATAATA
1 AAAACATTAGGAAACAATAATA
59163606 AAAACATTAGGAAACAATAATA
1 AAAACATTAGGAAACAATAATA
59163628 AAA
1 AAA
59163631 TAGAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAACATTAGGAAACAATAATA
Found at i:59171972 original size:42 final size:42
Alignment explanation
Indices: 59171894--59172104 Score: 172
Period size: 42 Copynumber: 4.9 Consensus size: 42
59171884 TTGGCCTCGG
* * * * * *
59171894 TATGTGATTTCATGTAAGGCCATATCTAGGATATGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
*
59171936 TATGAGATTTCGTGTAAGACCAGGTCTGGGACATGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
* * **
59171978 TTTGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCATCGGTACTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCA----T--TGA
* * * * * **
59172026 TGTGAGATTTCGTATAAAACCATATCTGGGATATGGCATCCA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
* *
59172068 TATGTAGA-CTCATGTAAGACCATGTCTGGGACATGGC
1 TATG-AGATTTCGTGTAAGACCATGTCTGGGACATGGC
59172105 TTTGGAATTC
Statistics
Matches: 133, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
42 95 0.71
43 3 0.02
44 1 0.01
46 1 0.01
48 33 0.25
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
Found at i:59172032 original size:90 final size:90
Alignment explanation
Indices: 59171933--59172104 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 90
59171923 GATATGGCAT
* * * ** * * *
59171933 TGATATGAGATTTCGTGTAAGACCAGGTCTGGGACATGGCATTGATTTG-AGGTCCCGTGTAAGA
1 TGATATGAGATTTCGTATAAAACCAGATCTGGGACATGGCATCCATATGTA-GACCCATGTAAGA
59171997 CCATGTCTGGGACATGGCATCGGTAC
65 CCATGTCTGGGACATGGCATCGGTAC
* * * *
59172023 TGATGTGAGATTTCGTATAAAACCATATCTGGGATATGGCATCCATATGTAGACTCATGTAAGAC
1 TGATATGAGATTTCGTATAAAACCAGATCTGGGACATGGCATCCATATGTAGACCCATGTAAGAC
59172088 CATGTCTGGGACATGGC
66 CATGTCTGGGACATGGC
59172105 TTTGGAATTC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
90 68 0.99
91 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (90 bp):
TGATATGAGATTTCGTATAAAACCAGATCTGGGACATGGCATCCATATGTAGACCCATGTAAGAC
CATGTCTGGGACATGGCATCGGTAC
Found at i:59200472 original size:48 final size:48
Alignment explanation
Indices: 59200392--59200490 Score: 155
Period size: 48 Copynumber: 2.1 Consensus size: 48
59200382 ACTATGATTA
**
59200392 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGTGTTGAT
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAT
*
59200440 ATGATAGCTAGTGTAAGACCATGTCT-GAGACATGGCATCGGCATTGAT
1 ATGAGAGCTAGTGTAAGACCATGTCTAG-GACATGGCATCGGCATTGAT
59200488 ATG
1 ATG
59200491 TGTGCCAGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAT
Found at i:59200612 original size:42 final size:42
Alignment explanation
Indices: 59200586--59200694 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 42
59200576 TATGAAATTT
59200586 CGTGTAAGACTAGGTCTGGGACATGACATCGATGTGAGGTCC
1 CGTGTAAGACTAGGTCTGGGACATGACATCGATGTGAGGTCC
* ** *
59200628 CGTGTAATACTAGGTCTCAGACATGATATCGATGTGAGGTCC
1 CGTGTAAGACTAGGTCTGGGACATGACATCGATGTGAGGTCC
* *
59200670 CGTGTAAGACCATGTCTGGGACATG
1 CGTGTAAGACTAGGTCTGGGACATG
59200695 GCATTGGCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
CGTGTAAGACTAGGTCTGGGACATGACATCGATGTGAGGTCC
Found at i:59204645 original size:46 final size:46
Alignment explanation
Indices: 59204585--59204857 Score: 323
Period size: 46 Copynumber: 5.9 Consensus size: 46
59204575 TCTAATATAA
* * * *
59204585 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCTTATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
** * *
59204631 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* ** * **
59204677 TGCCATAGTATCTTTCAACCATCATCTTATTCATTTCCCATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* * * **
59204723 TGCCATGATATCTTTCAACCATGGTCTTATTCATTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
* * *
59204769 TGCCATGATATCTTTCAACCATGGTCTTACAT-ATTTTATTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATATCATGT
*
59204815 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
59204858 GAAAGCACAC
Statistics
Matches: 191, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
46 190 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGT
Found at i:59204742 original size:92 final size:92
Alignment explanation
Indices: 59204585--59204853 Score: 362
Period size: 92 Copynumber: 2.9 Consensus size: 92
59204575 TCTAATATAA
* * * *
59204585 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCTTATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTAATCATTTCATATCATGTTGCCATGGTATCTTTCAAC
* *
59204650 CATGGTCTTGTTCATTTCATGTCACGT
66 CATGGTCTTATTCATTTCATGTCACAT
** * ** *
59204677 TGCCATAGTATCTTTCAACCATCATCTTATTCATTTCCCATCATGTTGCCATGATATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTAATCATTTCATATCATGTTGCCATGGTATCTTTCAAC
59204742 CATGGTCTTATTCATTTCATGTCACAT
66 CATGGTCTTATTCATTTCATGTCACAT
* *
59204769 TGCCAT-GATATCTTTCAACCATGGTCTTACAT-ATTTTATTTCATGTTGCCATGGTATCTTTCA
1 TGCCATAG-TATCTTTCAACCATGGTCTTA-ATCATTTCATATCATGTTGCCATGGTATCTTTCA
**
59204832 ACCATGGTCTTACACATTTCAT
64 ACCATGGTCTTATTCATTTCAT
59204854 ATCAGAAAGC
Statistics
Matches: 155, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
91 1 0.01
92 153 0.99
93 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTAATCATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTCACAT
Found at i:59211502 original size:102 final size:100
Alignment explanation
Indices: 59211346--59211743 Score: 397
Period size: 101 Copynumber: 4.0 Consensus size: 100
59211336 TAAAATGGTT
* * *
59211346 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
1 TTAGATCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
* *
59211411 AGTACTAAGTGCCGGCAACTATGCGTACCTGATAG
66 AGTACTAAGTGCAGGCAACTATGCGTACCAGATAG
* * ** *
59211446 CTTTGATCAC-TGTGTAGTACTAAGTACAGGGTACTACGTGTATATGACGATT-TTAGGTCACGT
1 -TTAGATCACATGTGTAGTACTAAGTACAGGCTACTACGTG--TACCA-GATTGTTAGGTCACAT
* * *
59211509 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
62 GTGTAGTACTAAGTGCAGGCAACTATGCGTACCAGATAG
* * * * * * * * *
59211548 TTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTA-TTCGTACCCGATAGCTTCGATCACATGT
1 TTAGATCACATGTGTAGTACTAAGTACAGGCTACTACGT-GTACCAGATTG-TTAGGTCACATGT
* * * * ** *
59211612 GTAGTACTAAGTACAGGCTACTACGTGTATTAGATGG
64 GTAGTACTAAGTGCAGGCAACTATGCGTACCAGATAG
* * * * * *
59211649 TTAGGTCACGTGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAAATTGTTAGGTCGCATGTGT
1 TTAGATCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
*
59211714 AGTACTAAGTGCAGGCTACTATGCGTACCA
66 AGTACTAAGTGCAGGCAACTATGCGTACCA
59211744 AAGAGCTTCG
Statistics
Matches: 242, Mismatches: 47, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
99 3 0.01
100 67 0.28
101 96 0.40
102 72 0.30
103 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TTAGATCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCAACTATGCGTACCAGATAG
Found at i:59211584 original size:152 final size:150
Alignment explanation
Indices: 59211344--59211742 Score: 647
Period size: 152 Copynumber: 2.6 Consensus size: 150
59211334 TTTAAAATGG
*
59211344 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGT
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGT
* * * *
59211409 GTAGTACTAAGTGCCGGCAACTATGCGTACCTGATAGCTTTGATCAC-TGTGTAGTACTAAGTAC
66 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTAGTACTAAGTAC
*
59211473 AGGGTACTACGTGTATATGACGA
131 AGGCTACTACGTGTAT-T-A-GA
*
59211496 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGT
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGT
* *
59211561 GTAGTACTAAGTGCAAGCTACTATTCGTACCCGATAGCTTCGATCACATGTGTAGTACTAAGTAC
66 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTAGTACTAAGTAC
59211626 AGGCTACTACGTGTATTAGA
131 AGGCTACTACGTGTATTAGA
* * *
59211646 TGGTTAGGTCACGTGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAAATTGTTAGGTCGCATG
1 T-TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
59211711 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
65 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
59211743 AAAGAGCTTC
Statistics
Matches: 230, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
150 3 0.01
151 90 0.39
152 105 0.46
153 32 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (150 bp):
TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGT
GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTAGTACTAAGTAC
AGGCTACTACGTGTATTAGA
Found at i:59211640 original size:101 final size:100
Alignment explanation
Indices: 59211301--59211743 Score: 401
Period size: 102 Copynumber: 4.4 Consensus size: 100
59211291 TTGAGAGAAG
* * *** * *
59211301 ACATGTGTAGTACTATGTGCAGCCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTGTAGTAC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGG--TTAGGTCACATGTGTAGTAC
* * * *
59211366 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
64 TAAGTGCAGCCTACTACGTGTACCAAATAGTTAGATC
* * * * * * *
59211403 ACATGTGTAGTACTAAGTGCCGGCAACTATGCGTACCTGATAGCTTTGATCAC-TGTGTAGTACT
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTTAGGTCACATGTGTAGTACT
* ** * * *
59211467 AAGTACAGGGTACTACGTGTA-TATGACGAT-TTTAGGTC
65 AAGTGCAGCCTACTACGTGTACCA--A--ATAGTTAGATC
* * *
59211505 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTACTA
* ** *
59211570 AGTGCAAG-CTACTA-TTCGTACCCGATAGCTTCGATC
66 AGTGC-AGCCTACTACGT-GTACCAAATAG-TTAGATC
* * ** *
59211606 ACATGTGTAGTACTAAGTACAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTACTA
* *
59211671 AGTGCAGCCTACTACGTGTACCAAATTGTTAGGTC
66 AGTGCAGCCTACTACGTGTACCAAATAGTTAGATC
* *
59211706 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
59211744 AAGAGCTTCG
Statistics
Matches: 271, Mismatches: 57, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
99 3 0.01
100 69 0.25
101 95 0.35
102 99 0.37
103 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGTAGTACTA
AGTGCAGCCTACTACGTGTACCAAATAGTTAGATC
Found at i:59211745 original size:50 final size:50
Alignment explanation
Indices: 59211301--59211743 Score: 444
Period size: 50 Copynumber: 8.8 Consensus size: 50
59211291 TTGAGAGAAG
* * ** *
59211301 ACATGTGTAGTACTATGTGCAGCCTACTATGTGTTTAAAATGGTT-TTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGTC
* *
59211353 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * * * * *
59211403 ACATGTGTAGTACTAAGTGCCGGCAACTATGCGTACCTGATAGCTTTGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTC
* * * **
59211454 AC-TGTGTAGTACTAAGTACAGGGTACTACGTGTATATGACGATT-TTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTA--TGTGTACCA-GATTGTTAGGTC
*
59211505 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * * * *
59211555 GCATGTGTAGTACTAAGTGCAAGCTACTAT-TCGTACCCGATAGCTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGT-GTACCAGATTG-TTAGGTC
* * ** *
59211606 ACATGTGTAGTACTAAGTACAGGCTACTACGTGTATTAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * *
59211656 ACGTGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAAATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* *
59211706 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
59211744 AAGAGCTTCG
Statistics
Matches: 319, Mismatches: 62, Indels: 22
0.79 0.15 0.05
Matches are distributed among these distances:
49 8 0.03
50 198 0.62
51 52 0.16
52 58 0.18
53 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
Found at i:59211780 original size:151 final size:153
Alignment explanation
Indices: 59211301--59211753 Score: 644
Period size: 152 Copynumber: 3.0 Consensus size: 153
59211291 TTGAGAGAAG
* * * * * ** * * *
59211301 ACATGTGTAGTACTATGTGCAGCCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTGTAGTAC
1 ACATGTGTAGTACTAAGTACAGGCTACTACGTGTATATGACGATGTTAGGTCACGTGTGTAGTAC
* * *
59211366 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCCGGCAACT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
* *
59211431 ATGCGTACCTGATAGCTTTGATC
131 ATGCGTACCAGATAGCTTCGATC
* *
59211454 AC-TGTGTAGTACTAAGTACAGGGTACTACGTGTATATGACGATTTTAGGTCACGTGTGTAGTAC
1 ACATGTGTAGTACTAAGTACAGGCTACTACGTGTATATGACGATGTTAGGTCACGTGTGTAGTAC
* *
59211518 TAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
* *
59211583 ATTCGTACCCGATAGCTTCGATC
131 ATGCGTACCAGATAGCTTCGATC
59211606 ACATGTGTAGTACTAAGTACAGGCTACTACGTGTAT-T-A-GATGGTTAGGTCACGTGTGTAGTA
1 ACATGTGTAGTACTAAGTACAGGCTACTACGTGTATATGACGAT-GTTAGGTCACGTGTGTAGTA
* *
59211668 CTAAGTGCAGCCTACTACGTGTACCAAATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
65 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
* *
59211733 TATGCGTACCAAAGAGCTTCG
130 TATGCGTACCAGATAGCTTCG
59211754 GTTACAAGGG
Statistics
Matches: 270, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
150 3 0.01
151 98 0.36
152 135 0.50
153 34 0.13
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (153 bp):
ACATGTGTAGTACTAAGTACAGGCTACTACGTGTATATGACGATGTTAGGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
ATGCGTACCAGATAGCTTCGATC
Found at i:59217293 original size:27 final size:27
Alignment explanation
Indices: 59217263--59217317 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
59217253 TGATCTAGCC
59217263 TTTCAATTTCAATACTGCTCTCATATA
1 TTTCAATTTCAATACTGCTCTCATATA
59217290 TTTCAATTTCAATACTGCTCTCATATA
1 TTTCAATTTCAATACTGCTCTCATATA
59217317 T
1 T
59217318 CAAAGTCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (27 bp):
TTTCAATTTCAATACTGCTCTCATATA
Found at i:59217326 original size:25 final size:26
Alignment explanation
Indices: 59217271--59217326 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
59217261 CCTTTCAATT
**
59217271 TCAATACTGCTCTCATATATTTCAATT
1 TCAATACTGCTCTCATATA-TTCAAAG
59217298 TCAATACTGCTCTCATATA-TCAAAG
1 TCAATACTGCTCTCATATATTCAAAG
59217323 TCAA
1 TCAA
59217327 CTTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
27 19 0.70
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (26 bp):
TCAATACTGCTCTCATATATTCAAAG
Found at i:59218888 original size:46 final size:47
Alignment explanation
Indices: 59218739--59218914 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 47
59218729 TCACTTGTGT
* * * * * *
59218739 GAGCTAGTGTAAGACATGTCTGGGACA-CGCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-GACGA
* *
59218785 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGACGA
* *
59218833 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGACG-A
59218880 -AGCCAGTGTAAGACATGTCTGGGAC-TGGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGC
59218915 ACAGATATGC
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 59 0.53
47 28 0.25
48 22 0.20
49 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGACGA
Found at i:59218937 original size:94 final size:94
Alignment explanation
Indices: 59218742--59218956 Score: 231
Period size: 94 Copynumber: 2.3 Consensus size: 94
59218732 CTTGTGTGAG
* * *
59218742 CTAGTGTAAGACATGTCTGGGACACGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGACGAGAGCCAGTGTAAGACCATGTCT
** ***
59218807 GGGACATGGCATCGGCATTGAGACGAGTG
66 GGGACATGGCATCGGCACAGAGACGAAAA
* *
59218836 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGACG-AGAGCCAGTGTAAGACCATGT
* *
59218898 CTGGGAC-TGGCATCGGCACAGATATGCTAAAA
64 CTGGGACATGGCATCGGCACAGAGA--CGAAAA
* *
59218930 CTTGTGTAAGACCATGTCTAGGACATG
1 CTAGTGTAAGA-CATGTCTGGGACATG
59218957 GCATTAGCAC
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
92 14 0.14
93 12 0.12
94 60 0.59
95 16 0.16
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGACGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCACAGAGACGAAAA
Found at i:59227625 original size:46 final size:46
Alignment explanation
Indices: 59227398--59227624 Score: 330
Period size: 46 Copynumber: 4.9 Consensus size: 46
59227388 TTTGACATAA
* * * *
59227398 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
59227444 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
59227490 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
59227536 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
59227582 TGCCATTGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
59227625 GAGAGCACAC
Statistics
Matches: 167, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 163 0.98
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:59232718 original size:22 final size:23
Alignment explanation
Indices: 59232693--59232735 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
59232683 ATTTTCGGGC
*
59232693 TTAGGGGTAAA-TGGTCATTTTG
1 TTAGGGGCAAATTGGTCATTTTG
59232715 TTAGGGGCAAATTGGTCATTT
1 TTAGGGGCAAATTGGTCATTT
59232736 CTCCCAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (23 bp):
TTAGGGGCAAATTGGTCATTTTG
Found at i:59242464 original size:114 final size:114
Alignment explanation
Indices: 59242263--59242594 Score: 374
Period size: 114 Copynumber: 2.9 Consensus size: 114
59242253 GTGTTGGAAG
* * * *
59242263 GAGAGGAGGCAA-CATCATATAAGGGTTTCAAGGTACATTTTT-A--GTTTTT-TAATTCTTATT
1 GAGAGGAGGCAAGCAT-AT-TAA-GGTTTAAAGATACATTTTTAATTTTTTTTGTAATTATTA-T
* * *
59242323 TTTTTTGTTTGTTTGTAATCCTTATTATTTGCCCTATTTTGCGGTTTT-AAAA
62 TTATTTGTTTATTTGTAATCCTTATTATTTGTCCTATTTTGCGGTTTTGAAAA
**
59242375 GAAGAGGAGGC-AGCATATTAAGGTTTAGTGATACATTTTTAATTTTTTTTGTAATTATTATTTA
1 G-AGAGGAGGCAAGCATATTAAGGTTTAAAGATACATTTTTAATTTTTTTTGTAATTATTATTTA
* * *
59242439 TTTGTTTATCTTGTAATCCTTATTATTTATCCTATTTTGTGGTTTTGGAAA
65 TTTGTTTAT-TTGTAATCCTTATTATTTGTCCTATTTTGCGGTTTTGAAAA
* * *
59242490 GAGAGGAGGCAGTAGCATATTAAGGTTTAAAGGTACATTTTTATTTTTATTTTGCAATTATTATT
1 GAGAGGAGGCA--AGCATATTAAGGTTTAAAGATACATTTTTAATTTT-TTTTGTAATTATTATT
*
59242555 TATCTGTTTATTTTGTAATCCTTATTA-TTGTCCTATTTTG
63 TATTTGTTTA-TTTGTAATCCTTATTATTTGTCCTATTTTG
59242595 TGGTATTGTG
Statistics
Matches: 188, Mismatches: 19, Indels: 21
0.82 0.08 0.09
Matches are distributed among these distances:
110 15 0.08
111 4 0.02
112 4 0.02
113 28 0.15
114 50 0.27
115 4 0.02
117 43 0.23
118 39 0.21
119 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.49
Consensus pattern (114 bp):
GAGAGGAGGCAAGCATATTAAGGTTTAAAGATACATTTTTAATTTTTTTTGTAATTATTATTTAT
TTGTTTATTTGTAATCCTTATTATTTGTCCTATTTTGCGGTTTTGAAAA
Found at i:59242580 original size:118 final size:115
Alignment explanation
Indices: 59242246--59242598 Score: 402
Period size: 117 Copynumber: 3.1 Consensus size: 115
59242236 GAGAAGAAGG
* * * *
59242246 TTTTGTAGTGTTGGAAGGAGAGGAGGCAA-CATCATATAAGGGTTTCAAGGTACATTTTTAGTTT
1 TTTTGTGGTTTTGGAAAGAGAGGAGGCAAGCAT-AT-TAA-GGTTTAAAGGTACATTTTTA-TTT
* * *
59242310 TTTAATT-C--TTATT-TTT-TTTGTTT-GTTTGTAATCCTTATTATTTGCCCTA
62 TTT-TTTGCAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTA
* * ** * *
59242359 TTTTGCGGTTTT-AAAAGAAGAGGAGGC-AGCATATTAAGGTTTAGTGATACATTTTTAATTTTT
1 TTTTGTGGTTTTGGAAAG-AGAGGAGGCAAGCATATTAAGGTTTAAAGGTACATTTTTATTTTTT
* * *
59242422 TTTGTAATTATTATTTATTTGTTTATCTTGTAATCCTTATTATTTATCCTA
65 TTTGCAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTA
59242473 TTTTGTGGTTTTGGAAAGAGAGGAGGCAGTAGCATATTAAGGTTTAAAGGTACATTTTTATTTTT
1 TTTTGTGGTTTTGGAAAGAGAGGAGGCA--AGCATATTAAGGTTTAAAGGTACATTTTTATTTTT
*
59242538 ATTTTGCAATTATTATTTATCTGTTTATTTTGTAATCCTTATTA-TTGTCCTA
64 -TTTTGCAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTA
59242590 TTTTGTGGT
1 TTTTGTGGT
59242599 ATTGTGTTGT
Statistics
Matches: 201, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
108 2 0.01
109 5 0.02
110 16 0.08
111 8 0.04
112 9 0.04
113 28 0.14
114 42 0.21
115 4 0.02
117 47 0.23
118 40 0.20
ACGTcount: A:0.25, C:0.08, G:0.18, T:0.49
Consensus pattern (115 bp):
TTTTGTGGTTTTGGAAAGAGAGGAGGCAAGCATATTAAGGTTTAAAGGTACATTTTTATTTTTTT
TTGCAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTA
Found at i:59243985 original size:20 final size:19
Alignment explanation
Indices: 59243941--59243982 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
59243931 GAACAAGATT
*
59243941 AAAAGGGAGGCTGTGAATC
1 AAAAGGGAGGCTGCGAATC
59243960 AAAAGGGAGGCTGCGAATC
1 AAAAGGGAGGCTGCGAATC
59243979 AAAA
1 AAAA
59243983 AGGAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.33, T:0.12
Consensus pattern (19 bp):
AAAAGGGAGGCTGCGAATC
Found at i:59247368 original size:44 final size:46
Alignment explanation
Indices: 59247209--59247373 Score: 145
Period size: 49 Copynumber: 3.5 Consensus size: 46
59247199 ATTCCAACGT
* *
59247209 CATGTCCCAGACATGGTCTTACACTGGCTAGCACAACAAAGTTGATGC
1 CATGTCCCAGACAT-GTCTTACACTGACTA-CACAACAAAGCTGATGC
* * * * * * * **
59247257 CATGTCCTAAACAGGTCTTACACTGACTTTCATATATCGAGGCCAATGC
1 CATGTCCCAGACATGTCTTACACTGAC-TACACA-A-CAAAGCTGATGC
* *
59247306 CATGTCCCAGACAAGTCTTACACTGAC-ACACAAC-AAGCTGACGC
1 CATGTCCCAGACATGTCTTACACTGACTACACAACAAAGCTGATGC
*
59247350 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
59247374 AGCTTGTATA
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
44 28 0.30
45 1 0.01
46 1 0.01
47 18 0.20
48 13 0.14
49 31 0.34
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTACACAACAAAGCTGATGC
Found at i:59247372 original size:93 final size:95
Alignment explanation
Indices: 59247209--59247416 Score: 255
Period size: 93 Copynumber: 2.2 Consensus size: 95
59247199 ATTCCAACGT
* * * *
59247209 CATGTCCCAGACATGGTCTTACACTGGCTAGCACAACAAAGTTGATGCCATGTCCTAAACAGGTC
1 CATGTCCCAGACA-AGTCTTACACTGACTAGCACAACAAAGCTGACGCCATGTCCTAAACAGGTC
59247274 TTACACT-GACTT-TCATATATCGAGGCCAATG
65 TTACACTAG-CTTGT-ATATATCGAGGCCAATG
* *
59247305 CCATGTCCCAGACAAGTCTTACACTGAC-A-CACAAC-AAGCTGACGCCATGTCCTAGACATGTC
1 -CATGTCCCAGACAAGTCTTACACTGACTAGCACAACAAAGCTGACGCCATGTCCTAAACAGGTC
* *
59247367 TTACACTAGCTTGTATATCTCGAGGCCGATG
65 TTACACTAGCTTGTATATATCGAGGCCAATG
* *
59247398 CATGTCCCAAACATGTCTT
1 CATGTCCCAGACAAGTCTT
59247417 GCATTAGCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
92 17 0.17
93 48 0.48
94 8 0.08
95 1 0.01
96 12 0.12
97 13 0.13
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (95 bp):
CATGTCCCAGACAAGTCTTACACTGACTAGCACAACAAAGCTGACGCCATGTCCTAAACAGGTCT
TACACTAGCTTGTATATATCGAGGCCAATG
Found at i:59247412 original size:48 final size:48
Alignment explanation
Indices: 59247350--59247563 Score: 222
Period size: 46 Copynumber: 4.5 Consensus size: 48
59247340 AAGCTGACGC
*
59247350 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * ** * *
59247398 CATGTCCCAAACATGTCTTGCATTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
59247444 TATGTCTCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGACG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
59247492 CATGTCCCAGACATGTCTTACACTGGCTCT-CATA-AT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGCCGATG
*
59247538 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
59247564 TACACATATC
Statistics
Matches: 134, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
46 65 0.49
47 5 0.04
48 63 0.47
49 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:59247551 original size:46 final size:48
Alignment explanation
Indices: 59247252--59247563 Score: 193
Period size: 46 Copynumber: 6.6 Consensus size: 48
59247242 CAACAAAGTT
* * *
59247252 GATGCCATGTCCTAAACAGGTCTTACACT-GACTTTCATATATCGAGGCC
1 GATG-CATGTCCTAGACATGTCTTACACTAG-CTTGCATATATCGAGGCC
* * * * * * *
59247301 AATGCCATGTCCCAGACAAGTCTTACACT-GAC--ACACA-A-C-AAGCT
1 GATG-CATGTCCTAGACATGTCTTACACTAG-CTTGCATATATCGAGGCC
* * *
59247345 GACGCCATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCTAGACATGTCTTACACTAGCTTGCATATATCGAGGCC
* * * * * * * *
59247394 GATGCATGTCCCAAACATGTCTTGCATTAGC-T-C-TCGTCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGCTTGCAT-ATATCGAGGCC
* * * *
59247440 GATGTATGT-CTCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCC
1 GATGCATGTCCT-AGACATGTCTTACACTAGCTTGCATATATCGAGGCC
* * * *
59247488 GACGCATGTCCCAGACATGTCTTACACTGGCTCT-CATA-AT-GTGGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGCT-TGCATATATCGAGGCC
59247534 GATGCATGTCCTAGACATGTCTTACACTAG
1 GATGCATGTCCTAGACATGTCTTACACTAG
59247564 TACACATATC
Statistics
Matches: 204, Mismatches: 46, Indels: 29
0.73 0.16 0.10
Matches are distributed among these distances:
44 29 0.14
45 4 0.02
46 66 0.32
47 6 0.03
48 62 0.30
49 37 0.18
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCTTGCATATATCGAGGCC
Found at i:59247573 original size:94 final size:93
Alignment explanation
Indices: 59247350--59247563 Score: 290
Period size: 94 Copynumber: 2.3 Consensus size: 93
59247340 AAGCTGACGC
*
59247350 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAAACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGACGCATGTCCCAAACATGTC
* * *
59247415 TTGCATTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCG-ATCAATGCCGATG
* * *
59247444 TATGT-CTCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGACGCATGTCCCAGACATGT
1 CATGTCCT-AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGACGCATGTCCCAAACATGT
*
59247508 CTTACACTGGCTCTC-AT-AATGTGGCCGATG
65 CTTACACTAGCTCTCGATCAA--T-GCCGATG
59247538 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCTAGACATGTCTTACACTAG
59247564 TACACATATC
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 3 0.03
94 97 0.92
95 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (93 bp):
CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGACGCATGTCCCAAACATGTC
TTACACTAGCTCTCGATCAATGCCGATG
Found at i:59250379 original size:18 final size:18
Alignment explanation
Indices: 59250356--59250391 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59250346 TTCTTGGGTG
59250356 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
59250374 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
59250392 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:59253864 original size:49 final size:49
Alignment explanation
Indices: 59253808--59253936 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
59253798 ATCAAAGTCG
* * *
59253808 ATGCCATGTACTAGACAGGTCCTACACTGACTTTTATATATCGACGCCA
1 ATGCCATGTCCTAGACAGGTCTTACACTGACTCTTATATATCGACGCCA
* * * * * * *
59253857 ATGCCATGTCCTAGATAGGTCTTGCGCTGGCTCTTATATATCGATGTCG
1 ATGCCATGTCCTAGACAGGTCTTACACTGACTCTTATATATCGACGCCA
*
59253906 ATGCCATGTCCTAGACAAGTCTTACACTGAC
1 ATGCCATGTCCTAGACAGGTCTTACACTGAC
59253937 ACACAACAAG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCTAGACAGGTCTTACACTGACTCTTATATATCGACGCCA
Found at i:59259124 original size:26 final size:26
Alignment explanation
Indices: 59259095--59259202 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
59259085 TTATACAAAT
59259095 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
59259121 TGATAATTGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59259147 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59259173 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59259199 TGAT
1 TGAT
59259203 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59260834 original size:27 final size:27
Alignment explanation
Indices: 59260794--59260934 Score: 130
Period size: 27 Copynumber: 5.2 Consensus size: 27
59260784 AGGAAGCGTC
*
59260794 CTGGTGGCTATGCCACAATTATCGGAT
1 CTGGTGGCTCTGCCACAATTATCGGAT
*
59260821 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCGGAT
* * * *
59260847 CCTGATGGCTATCCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCGGAT
*
59260875 CTGGTGGCTCTGCCAC-ATATATC-TATT
1 CTGGTGGCTCTGCCACAAT-TATCGGA-T
*
59260902 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATC-GGAT
59260929 CTGGTG
1 CTGGTG
59260935 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.10
27 80 0.83
28 6 0.06
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCGGAT
Found at i:59260876 original size:54 final size:54
Alignment explanation
Indices: 59260791--59260934 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
59260781 TAGAGGAAGC
*
59260791 GTCCTGGTGGCTATGCCACAATTATCGGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
59260845 GTCCTGATGGCTATCCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
59260899 ATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
59260935 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:59260946 original size:81 final size:80
Alignment explanation
Indices: 59260794--59260952 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 80
59260784 AGGAAGCGTC
*
59260794 CTGGTGGCTATGCCACAATTATCGGATCTGGTGGCTCTGCCACATATATCTGTCCTGATGGCTAT
1 CTGGTGGCTATGCCACAATTATCGGATCTGGTGGCTCTGCCACATATATCTGTCCTGATGACTAT
59260859 CCCACAATTATCTGAT
66 CCCACAA-TATCTGAT
* * * *
59260875 CTGGTGGCTCTGCCAC-ATATATC-TATTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCGGA-TCTGGTGGCTCTGCCACATATATCTGT-CCTGATGAC
*
59260937 T-TCGTCACAATATCTG
63 TATC-CCACAATATCTG
59260953 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
80 19 0.28
81 49 0.72
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCGGATCTGGTGGCTCTGCCACATATATCTGTCCTGATGACTAT
CCCACAATATCTGAT
Found at i:59262047 original size:32 final size:31
Alignment explanation
Indices: 59262011--59262080 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 31
59262001 AAGAATTTTG
*
59262011 TTTTTTTATGAAAATATGTTCTAGCAAGTTT
1 TTTTTTTATGAAAATATGTTCTAACAAGTTT
59262042 ATTTTTTTATGAAAATATGTTCTAACAAGTTT
1 -TTTTTTTATGAAAATATGTTCTAACAAGTTT
59262074 TTTTTTT
1 TTTTTTT
59262081 GAATGGTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 7 0.19
32 30 0.81
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.56
Consensus pattern (31 bp):
TTTTTTTATGAAAATATGTTCTAACAAGTTT
Found at i:59266944 original size:27 final size:27
Alignment explanation
Indices: 59266913--59267018 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
59266903 TAAAATTGAC
*
59266913 AAATGATTGTTTTTCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
*
59266940 AAATGATTATTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
*
59266967 AAATGATTGTTTTGCCCTTATGTGATA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* * * * *
59266994 AGATGACTGCTTTACCCCTATGTGG
1 AAATGATTGTTTTGCCCTTATGTGG
59267019 AGTATATATA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTTATGTGGTA
Found at i:59270864 original size:37 final size:37
Alignment explanation
Indices: 59270795--59270865 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
59270785 TTTAAATTAC
* **
59270795 AAGTATATGGTTATTTTATATGTGAATTAAAATGAAT
1 AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
*
59270832 AAGTATATGGTTATTTGATATGTGTACGAAAATG
1 AAGTATATGGTTATTTGATATGTGAACGAAAATG
59270866 TTCAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
Found at i:59273201 original size:13 final size:13
Alignment explanation
Indices: 59273164--59273212 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
59273154 TACATAATAT
*
59273164 GTTCACATATAGG
1 GTTCACATATAAG
** *
59273177 GTTTGCACATAAG
1 GTTCACATATAAG
59273190 GTTCACATATAAG
1 GTTCACATATAAG
*
59273203 GTTCTCATAT
1 GTTCACATAT
59273213 TGAATCACAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (13 bp):
GTTCACATATAAG
Found at i:59273418 original size:24 final size:23
Alignment explanation
Indices: 59273360--59273419 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
59273350 ATACTTATGT
* *
59273360 ACATAAGTGTTCGCATACATATTT
1 ACATAAGT-TTCGCATACATACTC
* *
59273384 ACCTAAAGTTTCGCATACTTACTC
1 ACAT-AAGTTTCGCATACATACTC
59273408 ACATAAGGTTTC
1 ACATAA-GTTTC
59273420 ACATGTTAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.07
24 23 0.79
25 4 0.14
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (23 bp):
ACATAAGTTTCGCATACATACTC
Found at i:59274048 original size:40 final size:40
Alignment explanation
Indices: 59273999--59274085 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
59273989 TTGATTTTGT
* *
59273999 TGGCCTTTTTAAATTATCATCCC-AGTTTACCCAGTTTCGA
1 TGGCATTTTTAAACTATCATCCCGA-TTTACCCAGTTTCGA
59274039 TGGCATTTTTAAACTATCATCCCGATTTACCCAGTTTCGA
1 TGGCATTTTTAAACTATCATCCCGATTTACCCAGTTTCGA
59274079 TGGCATT
1 TGGCATT
59274086 GCCACCTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (40 bp):
TGGCATTTTTAAACTATCATCCCGATTTACCCAGTTTCGA
Found at i:59276442 original size:17 final size:18
Alignment explanation
Indices: 59276408--59276444 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59276398 GCCCATGTTG
59276408 CATGCCCATGTGGGCCCA
1 CATGCCCATGTGGGCCCA
*
59276426 CATGCCCGTGT-GGCCCA
1 CATGCCCATGTGGGCCCA
59276443 CA
1 CA
59276445 CGGCCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.16
Consensus pattern (18 bp):
CATGCCCATGTGGGCCCA
Found at i:59291431 original size:39 final size:39
Alignment explanation
Indices: 59291205--59291420 Score: 351
Period size: 39 Copynumber: 5.5 Consensus size: 39
59291195 ACAAAACATG
*
59291205 CGGGACTTTAAGCCGGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
**
59291246 CGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
59291285 CGAGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
59291324 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
59291363 CAGGACTTAGCCCAGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
59291402 CGGGACTTAGCCTGGATAT
1 CGGGACTTAGCCCGGATAT
59291421 TTTTCTAGCA
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 155 0.95
40 2 0.01
41 6 0.04
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:59291456 original size:117 final size:118
Alignment explanation
Indices: 59291203--59291469 Score: 344
Period size: 117 Copynumber: 2.3 Consensus size: 118
59291193 CCACAAAACA
* *
59291203 TGCGGGACTTTAAGCCGGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAAC
1 TGCGGGACTTTAAGCC-GGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCAGATATAAC
*
59291268 GCCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAATACCAGCACGAATGCC
65 ACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAATACCAGCACGAATGCC
* *
59291322 TTCGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCAGATATAAT
1 TGCGGGACTTTAAG-CCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCAGATATAAC
* * ** * * **
59291385 ACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATTTTTCTAGCACTTA-GCC
65 ACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAATACCAGCACGAATGCC
* *
59291438 TGC-GGACTTTAAGTCCGGATATATTTCCAGCA
1 TGCGGGACTTTAAG-CCGGATATAATACCAGCA
59291470 TAAAGCCTGC
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
115 4 0.03
116 7 0.05
117 106 0.83
118 4 0.03
119 7 0.05
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (118 bp):
TGCGGGACTTTAAGCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCAGATATAACA
CCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAATACCAGCACGAATGCC
Found at i:59291458 original size:39 final size:39
Alignment explanation
Indices: 59291434--59291544 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
59291424 TCTAGCACTT
*
59291434 AGCCTGCGGACTTTAAGTCCGGATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
* *
59291473 AGCCTGCAGACTTCAAGTCCGAATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
*
59291512 AGCCTGCGGACTTCAAGTCCGGATATTTTTCCA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCA
59291545 ATACCATGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
AGCCTGCGGACTTCAAGTCCGGATATATTTCCAGCATAA
Found at i:59299827 original size:4 final size:4
Alignment explanation
Indices: 59299818--59299842 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
59299808 CAATGTAGTT
59299818 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
59299843 ATTCAATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:59306653 original size:22 final size:22
Alignment explanation
Indices: 59306628--59306678 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
59306618 ATGCACAATT
59306628 TGGGGCTACACGCCCATGTTCC
1 TGGGGCTACACGCCCATGTTCC
59306650 TGGGGCTACACGCCCATGTTCC
1 TGGGGCTACACGCCCATGTTCC
59306672 TGGGGCT
1 TGGGGCT
59306679 GTGTCCTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.12, C:0.33, G:0.31, T:0.24
Consensus pattern (22 bp):
TGGGGCTACACGCCCATGTTCC
Found at i:59310951 original size:44 final size:45
Alignment explanation
Indices: 59310768--59310972 Score: 170
Period size: 44 Copynumber: 4.5 Consensus size: 45
59310758 ATTGTGAGCT
* * * * *
59310768 AGTGTAAGACATGTCTAGGACATGCATTGGCCACATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TATTGAGACGAGTC
*
59310814 AGTGTGAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATTGAGACGAGT-C
* * *
59310861 TAGTGTAAGACAT-T-TGGGACATGCATCGAC-CTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCTATTGAGACG--AGTC
* *
59310906 AGTGTAAGACATGTCTGGGACATGCATCGGCTA-TGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATTGAGACGAGTC
* *
59310950 AGTGTCAGACCATGTCCGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
59310973 CGGTATCGAC
Statistics
Matches: 130, Mismatches: 17, Indels: 25
0.76 0.10 0.15
Matches are distributed among these distances:
44 36 0.28
45 28 0.22
46 35 0.27
47 17 0.13
48 14 0.11
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATTGAGACGAGTC
Found at i:59315076 original size:13 final size:13
Alignment explanation
Indices: 59315060--59315085 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59315050 TAAATAATTT
59315060 TTTGAAAATTTTG
1 TTTGAAAATTTTG
59315073 TTTGAAAATTTTG
1 TTTGAAAATTTTG
59315086 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:59316188 original size:42 final size:42
Alignment explanation
Indices: 59316129--59316245 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
59316119 TAGGGTTGGT
*
59316129 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
* * * * * *
59316171 TGAGATTTTGTGTAAGACCATAGCTGAGCTATTGGCATCGATT
1 TGAGATTATGTGTAAGACCATATCTGGGATA-TGACATCGATA
**
59316214 TGAGATCCCT-TGTAAGACCATATCTGGGATAT
1 TGAGAT-TATGTGTAAGACCATATCTGGGATAT
59316246 AGCATTGGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.44
43 33 0.54
44 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:59318064 original size:28 final size:30
Alignment explanation
Indices: 59318033--59318088 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59318023 CGCATGGCCG
59318033 TGCGTCACACACA-G-TCAAGACACACGTC
1 TGCGTCACACACATGATCAAGACACACGTC
**
59318061 TGCGTGTCACACATGATCAAGACACACG
1 TGCGTCACACACATGATCAAGACACACG
59318089 CCAGTGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 1 0.04
30 12 0.50
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (30 bp):
TGCGTCACACACATGATCAAGACACACGTC
Found at i:59318098 original size:30 final size:28
Alignment explanation
Indices: 59318040--59318098 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
59318030 CCGTGCGTCA
* *
59318040 CACACAGTCAAGACACACGTCTGCGTGT
1 CACACAGTCAAGACACACGCCAGCGTGT
*
59318068 CACACATGATCAAGACACACGCCAGTGTGT
1 CACACA-G-TCAAGACACACGCCAGCGTGT
59318098 C
1 C
59318099 TACCCATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.23
29 1 0.04
30 19 0.73
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (28 bp):
CACACAGTCAAGACACACGCCAGCGTGT
Found at i:59319806 original size:37 final size:37
Alignment explanation
Indices: 59319747--59319855 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
59319737 AGCTCAGACG
* *
59319747 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
59319784 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
59319821 TAATTTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59319856 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59320056 original size:48 final size:48
Alignment explanation
Indices: 59320002--59320346 Score: 505
Period size: 48 Copynumber: 7.1 Consensus size: 48
59319992 GCACATCGCC
*
59320002 TACATATTTCACACTAGCCATTCGGCTTTACCACTTATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
59320050 TACATATTCCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
59320100 TATATATTTCACA-TTGACCATTCGTCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
59320148 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
59320196 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
59320244 TACATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TAC--ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
* * *
59320294 TACATATTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTTA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
59320342 TACAT
1 TACAT
59320347 CAATTTCAGC
Statistics
Matches: 269, Mismatches: 20, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
48 178 0.66
49 8 0.03
50 83 0.31
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:59320345 original size:146 final size:146
Alignment explanation
Indices: 59320002--59320346 Score: 618
Period size: 146 Copynumber: 2.4 Consensus size: 146
59319992 GCACATCGCC
* *
59320002 TACATATTTCACACTAGCCATTCGGCTTTACCACTTATACATATCTCATACATATTCCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTCCACACTAG
* *
59320067 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGTCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTGACCATTCGGCTTTACC
59320132 ACATATGCATATCTCA
131 ACATATGCATATCTCA
* *
59320148 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTCCACACTAG
59320213 CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTGACCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTGACCATTCGGCTTTACC
59320278 ACATATGCATATCTCA
131 ACATATGCATATCTCA
* *
59320294 TACATATTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTTATACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
59320347 CAATTTCAGC
Statistics
Matches: 190, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 190 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTCCACACTAG
CCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATTGACCATTCGGCTTTACC
ACATATGCATATCTCA
Found at i:59320354 original size:98 final size:96
Alignment explanation
Indices: 59320002--59320346 Score: 514
Period size: 98 Copynumber: 3.6 Consensus size: 96
59319992 GCACATCGCC
* * *
59320002 TACATATTTCACACTAGCCATTCGGCTTTACCACTTATACATATCTCATACATATTCCACACTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
59320067 CCATTCGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
* * * *
59320100 TATATATTTCACA-TTGACCATTCGTCTTTACCACATATGCATATCTCATACATATTTCACATTA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
*
59320164 GCCATTCGGCTTTACCACATATACATATCCCA
65 GCCATTCGGCTTTACCACATATACATATCTCA
59320196 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC--ATATTTCACATT
*
59320261 -GACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCGGCTTTACCACATATACATATCTCA
* * *
59320294 TACATATTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTTATACAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
59320347 CAATTTCAGC
Statistics
Matches: 225, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
96 47 0.21
97 5 0.02
98 173 0.77
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:59322879 original size:24 final size:23
Alignment explanation
Indices: 59322810--59322880 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
59322800 GTTATATAAT
*
59322810 GGGAAGCTCATAAGAGCCATAATC
1 GGGAAGCTCACAAGAGCCAT-ATC
* **
59322834 GGGAAGTTCACAAAGAATCATATC
1 GGGAAGCTCAC-AAGAGCCATATC
59322858 GGGAAGCTCACAAGGAGCCATAT
1 GGGAAGCTCACAA-GAGCCATAT
59322881 AATGGGAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.05
24 29 0.76
25 7 0.18
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (23 bp):
GGGAAGCTCACAAGAGCCATATC
Found at i:59331835 original size:35 final size:35
Alignment explanation
Indices: 59331789--59331859 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
59331779 ACCGTTTGAG
* *
59331789 ACTACCAAGAGAGTAGGGCCAGTTGCCTATCGGTT
1 ACTACCAAGAGAGAAGGGCCAGTTGCCTATCAGTT
59331824 ACTACCAAGAGAGAAGGGCCAGTTGCCTATCAGTT
1 ACTACCAAGAGAGAAGGGCCAGTTGCCTATCAGTT
59331859 A
1 A
59331860 GCCTTACCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.21
Consensus pattern (35 bp):
ACTACCAAGAGAGAAGGGCCAGTTGCCTATCAGTT
Found at i:59337998 original size:16 final size:16
Alignment explanation
Indices: 59337977--59338018 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59337967 TTATTAAATT
*
59337977 ATATATTTTAATTATA
1 ATATATTTTAATAATA
59337993 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
59338008 AT-TATGTTTAA
1 ATATAT-TTTAA
59338019 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:59338003 original size:15 final size:15
Alignment explanation
Indices: 59337968--59338009 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59337958 TTAAGAATTT
*
59337968 TATTAAATTAT-ATA
1 TATTTAATTATAATA
59337982 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
59337996 TATTTAATAATAAT
1 TATTTAATTATAAT
59338010 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:59338244 original size:45 final size:44
Alignment explanation
Indices: 59338163--59338253 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
59338153 ACCTCTATTC
* *
59338163 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
*** *
59338207 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCAATA
59338252 CA
1 CA
59338254 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
Found at i:59338255 original size:16 final size:16
Alignment explanation
Indices: 59338234--59338301 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
59338224 GATTTGCTAT
*
59338234 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
59338250 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
59338266 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59338282 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59338298 TACA
1 TACA
59338302 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59338901 original size:20 final size:19
Alignment explanation
Indices: 59338855--59338901 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
59338845 ATTAATTTTC
*
59338855 AATATTTTCTAATTTTTAT
1 AATATTTTCTAATTTTAAT
59338874 AATATTTTCATAATTTCTAAT
1 AATATTTTC-TAATTT-TAAT
59338895 AAT-TTTT
1 AATATTTT
59338902 TGAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 10 0.40
21 6 0.24
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATTTTCTAATTTTAAT
Found at i:59339520 original size:23 final size:23
Alignment explanation
Indices: 59339494--59339540 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
59339484 TTACACTTTC
59339494 AGTATACTAACTCGGGTCACAAA
1 AGTATACTAACTCGGGTCACAAA
59339517 AGTATACTAACTCGGGTCACAAA
1 AGTATACTAACTCGGGTCACAAA
59339540 A
1 A
59339541 TTTCATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (23 bp):
AGTATACTAACTCGGGTCACAAA
Found at i:59359945 original size:42 final size:42
Alignment explanation
Indices: 59359842--59359957 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
59359832 GGAATTAAGA
* * * *
59359842 AATCCGAGCTCGTTGAGCGGTCCGAGCTCGTGATATATGTCAG
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATG-CAG
*
59359885 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATG-AGG
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGCA-G
* * *
59359927 CATCCGATCTTGTTGAGTGGTCTGAGTTCGT
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGT
59359958 AATGGATGCG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 34 0.54
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (42 bp):
AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGCAG
Found at i:59360014 original size:51 final size:51
Alignment explanation
Indices: 59359927--59360026 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
59359917 ATATATGAGG
* * * * *
59359927 CATCCGATCTTGTTGAGTGGTCTGAGTTCGTAATGGATGCGATACATGTAA
1 CATCCGAACTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
* * * *
59359978 CATCCGAACTCGTTGGGAGGTCCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAACTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGT
59360027 GATAAGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (51 bp):
CATCCGAACTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
Found at i:59362509 original size:25 final size:25
Alignment explanation
Indices: 59362481--59362528 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
59362471 ATTTAGCCAT
*
59362481 TTTTTATTTCTA-TTTTATTTTTATA
1 TTTTTATTT-TAGTTTAATTTTTATA
*
59362506 TTTTTGTTTTAGTTTAATTTTTA
1 TTTTTATTTTAGTTTAATTTTTA
59362529 CATTCTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTAGTTTAATTTTTATA
Found at i:59365982 original size:6 final size:6
Alignment explanation
Indices: 59365971--59366008 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
59365961 ATTTTATTTC
59365971 TTTTAT TTTTAT TTTTAT TTTTAT TTTTGA- TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TT
59366009 CTTTGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.03
6 28 0.93
7 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:59367514 original size:14 final size:14
Alignment explanation
Indices: 59367491--59367524 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
59367481 CAACCGTGGG
*
59367491 CAACATTGACTTAT
1 CAACACTGACTTAT
59367505 CAACACTGACTTAT
1 CAACACTGACTTAT
59367519 CAACAC
1 CAACAC
59367525 GGCCATGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (14 bp):
CAACACTGACTTAT
Found at i:59376261 original size:30 final size:32
Alignment explanation
Indices: 59376225--59376297 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
59376215 CACGATGCGA
59376225 ACACGGTCGTTTAAT-G-ACACAATCTAAGGG
1 ACACGGTCGTTTAATGGCACACAATCTAAGGG
* * *
59376255 GCACGGTCATTTAATGGGCACACAGTCTAAGGG
1 ACACGGTCGTTTAAT-GGCACACAATCTAAGGG
59376288 ACACGGTCGT
1 ACACGGTCGT
59376298 GTAGATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 13 0.37
32 1 0.03
33 21 0.60
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (32 bp):
ACACGGTCGTTTAATGGCACACAATCTAAGGG
Found at i:59383862 original size:15 final size:15
Alignment explanation
Indices: 59383830--59383859 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59383820 GTTAAAATTG
59383830 AAAAAAAAATTAACC
1 AAAAAAAAATTAACC
59383845 AAAATAAAAATTAAC
1 AAAA-AAAAATTAAC
59383860 AAAGTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAAAATTAACC
Found at i:59384613 original size:87 final size:87
Alignment explanation
Indices: 59384467--59384719 Score: 490
Period size: 87 Copynumber: 2.9 Consensus size: 87
59384457 TTACGTGAGG
59384467 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
59384532 GTATCGTTAGATACAATGTATT
66 GTATCGTTAGATACAATGTATT
59384554 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
59384619 GTATCGTTAGATACAATGTATT
66 GTATCGTTAGATACAATGTATT
59384641 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAG-CATAA
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTC-TAA
59384705 TGTATCGTTAGATAC
65 TGTATCGTTAGATAC
59384720 CGTTGCTAAT
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
86 1 0.01
87 164 0.99
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (87 bp):
TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
GTATCGTTAGATACAATGTATT
Found at i:59389086 original size:11 final size:11
Alignment explanation
Indices: 59389070--59389096 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59389060 AGGAGCCAAG
59389070 CAAGAGATTTC
1 CAAGAGATTTC
59389081 CAAGAGATTTC
1 CAAGAGATTTC
59389092 CAAGA
1 CAAGA
59389097 ACTTTAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (11 bp):
CAAGAGATTTC
Found at i:59392317 original size:13 final size:12
Alignment explanation
Indices: 59392293--59392317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59392283 CACATTAATT
59392293 ATAGCTAAAAAA
1 ATAGCTAAAAAA
59392305 ATAGCTAAAAAA
1 ATAGCTAAAAAA
59392317 A
1 A
59392318 GGTAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAGCTAAAAAA
Found at i:59394863 original size:21 final size:21
Alignment explanation
Indices: 59394837--59394877 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59394827 ATCTGCTCAA
* *
59394837 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
59394858 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
59394878 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:59399648 original size:22 final size:22
Alignment explanation
Indices: 59399623--59399669 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
59399613 ATGATTCAAC
* *
59399623 ATTAATAAATAATTTTAA-TATT
1 ATTAA-AAATAAATATAATTATT
59399645 ATTAAAAATAAATATAATTATT
1 ATTAAAAATAAATATAATTATT
59399667 ATT
1 ATT
59399670 TTTTAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTAAAAATAAATATAATTATT
Done.