Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 54
Found at i:4160067 original size:20 final size:20
Alignment explanation
Indices: 4160042--4160083 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4160032 TATCGATACC
4160042 CTATTCATAAGGTATCCATA
1 CTATTCATAAGGTATCCATA
*
4160062 CTATTCATAAGGTATCGATA
1 CTATTCATAAGGTATCCATA
4160082 CT
1 CT
4160084 CAAGGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
CTATTCATAAGGTATCCATA
Found at i:4162987 original size:9 final size:9
Alignment explanation
Indices: 4162970--4163055 Score: 77
Period size: 9 Copynumber: 9.3 Consensus size: 9
4162960 CTGCTAGAAA
4162970 ACCGGTTTG
1 ACCGGTTTG
*
4162979 ACCGTTTTG
1 ACCGGTTTG
4162988 AACCGGTTTG
1 -ACCGGTTTG
*
4162998 ACC-GTTCG
1 ACCGGTTTG
4163006 AACC-GTTTG
1 -ACCGGTTTG
*
4163015 ACCGGTCTG
1 ACCGGTTTG
4163024 AACCGGTTTG
1 -ACCGGTTTG
*
4163034 ACCGGTCTG
1 ACCGGTTTG
*
4163043 AACCGGGTTG
1 -ACCGGTTTG
4163053 ACC
1 ACC
4163056 CGACCCGACT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
8 7 0.11
9 33 0.52
10 23 0.37
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4162993 original size:19 final size:19
Alignment explanation
Indices: 4162969--4163055 Score: 124
Period size: 19 Copynumber: 4.7 Consensus size: 19
4162959 GCTGCTAGAA
* *
4162969 AACCGGTTTGACCGTTTTG
1 AACCGGTTTGACCGGTCTG
*
4162988 AACCGGTTTGACCGTTC-G
1 AACCGGTTTGACCGGTCTG
4163006 AACC-GTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
4163024 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
4163043 AACCGGGTTGACC
1 AACCGGTTTGACC
4163056 CGACCCGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
17 11 0.17
18 10 0.16
19 42 0.67
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:4163017 original size:36 final size:37
Alignment explanation
Indices: 4162969--4163047 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 37
4162959 GCTGCTAGAA
* * *
4162969 AACCGGTTTGACCGTTTTGAACCGGTTTGACCGTTC-G
1 AACC-GTTTGACCGGTCTGAACCGGTTTGACCGGTCTG
4163006 AACCGTTTGACCGGTCTGAACCGGTTTGACCGGTCTG
1 AACCGTTTGACCGGTCTGAACCGGTTTGACCGGTCTG
4163043 AACCG
1 AACCG
4163048 GGTTGACCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 28 0.74
37 10 0.26
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.28
Consensus pattern (37 bp):
AACCGTTTGACCGGTCTGAACCGGTTTGACCGGTCTG
Found at i:4163071 original size:17 final size:17
Alignment explanation
Indices: 4163049--4163106 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
4163039 TCTGAACCGG
*
4163049 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
4163066 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
4163083 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
4163100 GTTGACC
1 GTTGACC
4163107 GTTGACCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:4163106 original size:7 final size:7
Alignment explanation
Indices: 4163096--4163132 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
4163086 GACCCGACCC
4163096 GACCGTT
1 GACCGTT
4163103 GACCGTT
1 GACCGTT
4163110 GACCG-T
1 GACCGTT
4163116 GACCGTT
1 GACCGTT
4163123 GACCGTT
1 GACCGTT
4163130 GAC
1 GAC
4163133 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:4163120 original size:13 final size:13
Alignment explanation
Indices: 4163096--4163128 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4163086 GACCCGACCC
4163096 GACCGTTGACCGTT
1 GACCG-TGACCGTT
4163110 GACCGTGACCGTT
1 GACCGTGACCGTT
4163123 GACCGT
1 GACCGT
4163129 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:4170300 original size:9 final size:9
Alignment explanation
Indices: 4170283--4170370 Score: 95
Period size: 9 Copynumber: 9.3 Consensus size: 9
4170273 CTGCTGGAAA
4170283 ACCGGTTTG
1 ACCGGTTTG
*
4170292 ACCGTTTTG
1 ACCGGTTTG
4170301 AACCGGTTTG
1 -ACCGGTTTG
*
4170311 ACCGGTTCG
1 ACCGGTTTG
4170320 AACCGGTTTG
1 -ACCGGTTTG
*
4170330 ACCGGTCTG
1 ACCGGTTTG
4170339 AACCGGTTTG
1 -ACCGGTTTG
*
4170349 ACCGGTCTG
1 ACCGGTTTG
*
4170358 AACCGGGTTG
1 -ACCGGTTTG
4170368 ACC
1 ACC
4170371 CGACCCGACT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
9 35 0.53
10 31 0.47
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4170306 original size:19 final size:19
Alignment explanation
Indices: 4170282--4170370 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 19
4170272 GCTGCTGGAA
* *
4170282 AACCGGTTTGACCGTTTTG
1 AACCGGTTTGACCGGTCTG
4170301 AACCGGTTTGACCGGT-TCG
1 AACCGGTTTGACCGGTCT-G
4170320 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
4170339 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
4170358 AACCGGGTTGACC
1 AACCGGTTTGACC
4170371 CGACCCGACT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
18 1 0.02
19 64 0.97
20 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:4170386 original size:17 final size:17
Alignment explanation
Indices: 4170364--4170421 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
4170354 TCTGAACCGG
*
4170364 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
4170381 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
4170398 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
4170415 GTTGACC
1 GTTGACC
4170422 GTTGACCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:4170421 original size:7 final size:7
Alignment explanation
Indices: 4170411--4170447 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
4170401 GACCCGACCC
4170411 GACCGTT
1 GACCGTT
4170418 GACCGTT
1 GACCGTT
4170425 GACCG-T
1 GACCGTT
4170431 GACCGTT
1 GACCGTT
4170438 GACCGTT
1 GACCGTT
4170445 GAC
1 GAC
4170448 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:4170435 original size:13 final size:13
Alignment explanation
Indices: 4170411--4170443 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4170401 GACCCGACCC
4170411 GACCGTTGACCGTT
1 GACCG-TGACCGTT
4170425 GACCGTGACCGTT
1 GACCGTGACCGTT
4170438 GACCGT
1 GACCGT
4170444 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:4172674 original size:92 final size:92
Alignment explanation
Indices: 4172517--4172701 Score: 352
Period size: 92 Copynumber: 2.0 Consensus size: 92
4172507 TATGTCACAC
* *
4172517 AAAAGTTCCTTGAAAATTTCTCTGGTGATCAGGTATATCATTAACGCATTACTTCAGCTTTTCTA
1 AAAAGTTCCTTGAAAACTTCTCTGGTGATCAGGTATATCATGAACGCATTACTTCAGCTTTTCTA
4172582 ATTGCACTGGGCAAATCATCTATGGAA
66 ATTGCACTGGGCAAATCATCTATGGAA
4172609 AAAAGTTCCTTGAAAACTTCTCTGGTGATCAGGTATATCATGAACGCATTACTTCAGCTTTTCTA
1 AAAAGTTCCTTGAAAACTTCTCTGGTGATCAGGTATATCATGAACGCATTACTTCAGCTTTTCTA
4172674 ATTGCACTGGGCAAATCATCTATGGAA
66 ATTGCACTGGGCAAATCATCTATGGAA
4172701 A
1 A
4172702 GTGATCATGA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (92 bp):
AAAAGTTCCTTGAAAACTTCTCTGGTGATCAGGTATATCATGAACGCATTACTTCAGCTTTTCTA
ATTGCACTGGGCAAATCATCTATGGAA
Found at i:4178390 original size:60 final size:60
Alignment explanation
Indices: 4178324--4178452 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
4178314 TCATGTGACT
* *
4178324 ATTTTGTAACTTTCAATAGTAGGAGGACTCAACAAAGCAACATCCTATGGTCGAGAGACC
1 ATTTTGTAACTTTCAATAGTAGGAGGACTCAACAAAACAACATCCTATAGTCGAGAGACC
* * * * * * * *
4178384 ATTTTGTAACTTTTAATAGTCGGGGGACTCAATAAAATAACGTCGTATAGTCGAGGGACC
1 ATTTTGTAACTTTCAATAGTAGGAGGACTCAACAAAACAACATCCTATAGTCGAGAGACC
4178444 ATTTGTGTA
1 ATTT-TGTA
4178453 CTACCCTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
60 54 0.93
61 4 0.07
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (60 bp):
ATTTTGTAACTTTCAATAGTAGGAGGACTCAACAAAACAACATCCTATAGTCGAGAGACC
Found at i:4179573 original size:60 final size:60
Alignment explanation
Indices: 4179449--4179584 Score: 157
Period size: 60 Copynumber: 2.3 Consensus size: 60
4179439 TCGCCGGGTG
* * *
4179449 ACCATTTTGTAATTTTTAATAGTCGGGAGACTCAACAAAACAACACCCTATACTTGGGGG
1 ACCATTTTGTAACTTTTAATAGTCGGGAGACTCAACAAAACAACACCCTATACTCGGGGA
* * * **** *
4179509 ACCATTTTGTAACTTTTAATAGTTGGGGGACTCAACAAAGCATGGTCCTATAGTCGGGGA
1 ACCATTTTGTAACTTTTAATAGTCGGGAGACTCAACAAAACAACACCCTATACTCGGGGA
4179569 ACCA-TTTGTGAACTTT
1 ACCATTTTGT-AACTTT
4179585 ACCCTATTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 5 0.08
60 59 0.92
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (60 bp):
ACCATTTTGTAACTTTTAATAGTCGGGAGACTCAACAAAACAACACCCTATACTCGGGGA
Found at i:4182708 original size:75 final size:71
Alignment explanation
Indices: 4182551--4182771 Score: 232
Period size: 73 Copynumber: 3.0 Consensus size: 71
4182541 TGAAAATACG
** * *
4182551 TATATAATATATGGTTTTT-AAAACACTTTTAAAAACTATATATTATATATATTTTCAAAACATT
1 TATATAATATATAATTTTTAAAAACA-TTTTAAAAAC-ATATAATATATA-ATTTTTAAAACATT
4182615 TTTAAAAAA
63 TTTAAAAAA
* * *
4182624 TATATAATATATAATTTTTGAAAAACATTTTGAAAACATATAATATATAATTTTTAGAGCATTTT
1 TATATAATATATAATTTTT-AAAAACATTTTAAAAACATATAATATATAATTTTTAAAACATTTT
*
4182689 TGAAAACTTA
65 T-AAAA--AA
*
4182699 TATATAATATATAATTTTTTAAAAACATTTTTAAAAA-AAAT-ATATATAATTTTTAAAAGAACA
1 TATATAATATATAA-TTTTTAAAAACA-TTTTAAAAACATATAATATATAATTTTT--AA-AACA
4182762 TTTTTAAAAA
61 TTTTTAAAAA
4182772 TTATTAGTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
72 14 0.11
73 32 0.26
74 22 0.18
75 31 0.25
76 18 0.14
77 8 0.06
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (71 bp):
TATATAATATATAATTTTTAAAAACATTTTAAAAACATATAATATATAATTTTTAAAACATTTTT
AAAAAA
Found at i:4182766 original size:36 final size:35
Alignment explanation
Indices: 4182554--4182771 Score: 174
Period size: 36 Copynumber: 5.9 Consensus size: 35
4182544 AAATACGTAT
** * **
4182554 ATAATATATGGTTTTT-AAAACACTTTTAAAAACT
1 ATAATATATAATTTTTAAAAACATTTTTAAAAAAA
*
4182588 AT-ATATTATATATATTTTCAAAACATTTTTAAAAAATA
1 ATAATA-TATA-AT-TTTTAAAAACATTTTTAAAAAA-A
* * *
4182626 TATAATATATAATTTTTGAAAAACATTTTGAAAACAT
1 -ATAATATATAATTTTT-AAAAACATTTTTAAAAAAA
* * *
4182663 ATAATATATAATTTTT-AGAGCATTTTTGAAAACTTATAT
1 ATAATATATAATTTTTAAAAACATTTTT-AAAA---A-AA
4182702 ATAATATATAATTTTTTAAAAACATTTTTAAAAAAA
1 ATAATATATAA-TTTTTAAAAACATTTTTAAAAAAA
4182738 AT-ATATATAATTTTTAAAAGAACATTTTTAAAAA
1 ATAATATATAATTTTT-AAA-AACATTTTTAAAAA
4182772 TTATTAGTTT
Statistics
Matches: 151, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
33 3 0.02
34 18 0.12
35 16 0.11
36 37 0.25
37 20 0.13
38 17 0.11
39 19 0.13
40 12 0.08
41 9 0.06
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (35 bp):
ATAATATATAATTTTTAAAAACATTTTTAAAAAAA
Found at i:4182771 original size:33 final size:32
Alignment explanation
Indices: 4182705--4182810 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 32
4182695 CTTATATATA
*
4182705 ATATATAATTTTTTAAAAACATTTTTAAAAAAAAT
1 ATATATAATTTTTAAAAAACATTTTT---AAAAAT
4182740 ATATATAATTTTTAAAAGAACATTTTTAAAAAT
1 ATATATAATTTTTAAAA-AACATTTTTAAAAAT
* * *
4182773 -TAT-TAGTTTTTTGAAAAACATTTTTGAAAAT
1 ATATATA-ATTTTTAAAAAACATTTTTAAAAAT
*
4182804 TTATATA
1 ATATATA
4182811 TAGTATATAG
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
31 16 0.25
32 14 0.22
33 8 0.13
35 16 0.25
36 9 0.14
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (32 bp):
ATATATAATTTTTAAAAAACATTTTTAAAAAT
Found at i:4182878 original size:13 final size:13
Alignment explanation
Indices: 4182860--4182885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4182850 ATATTATATA
4182860 GTTTTTATTTATT
1 GTTTTTATTTATT
4182873 GTTTTTATTTATT
1 GTTTTTATTTATT
4182886 ATTATTCACT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:4184254 original size:26 final size:26
Alignment explanation
Indices: 4184212--4184263 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4184202 ATTCAATTCC
4184212 GTTTTTTTATTTCTTATTCT-TCTATT
1 GTTTTTTTATTTCTTATT-TATCTATT
*
4184238 GTTTTGTTT-TTTTTTATTTATCTATT
1 GTTTT-TTTATTTCTTATTTATCTATT
4184264 TGATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.04
26 19 0.83
27 3 0.13
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.75
Consensus pattern (26 bp):
GTTTTTTTATTTCTTATTTATCTATT
Found at i:4189429 original size:165 final size:164
Alignment explanation
Indices: 4189140--4190476 Score: 1400
Period size: 165 Copynumber: 8.1 Consensus size: 164
4189130 GCTCAAGGCC
* *
4189140 AGAAGGGCTACCTGCC-A-CAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
*** *
4189202 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGC
65 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACACTCAGC
* *
4189267 TTCGAGGGCACATCATTTGTAGCATAACTTAAGTCG
130 -TCAAGGGCACATCATTTGCAGCATAACTTAAGTCG
4189303 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * ** * * * *
4189368 CGTAATATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGTCCCTTAAGTTCGATTACACTCAGCT
66 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACACTCAGC-
* * * *
4189433 TCAAGGGCATATCATTTACAGCATAACTCAACG-CT
130 TCAAGGGCACATCATTTGCAGCATAACTTAA-GTCG
* * * *
4189468 AGAAGGGTTATCTGTCAA-CAAAAACCTTTTAGTTCGACTACACTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * *
4189532 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCTTAAGTTCAATTACACTCAGCT
66 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACACTCAGC-
* * * * *
4189597 TCGAGGGCACATCATTTACAGCATAACTCAAGGCT
130 TCAAGGGCACATCATTTGCAGCATAACTTAAGTCG
* **
4189632 AGAAGGGTTTTCTG-TGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCA
1 AGAAGGGTTATCTGCCAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCA
* * ** *
4189695 TTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAG
64 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACACTCAG
* *
4189760 CTTCGAGGGCACTTCATTTGCAGCATAACTTAAGTCG
129 C-TCAAGGGCACATCATTTGCAGCATAACTTAAGTCG
* * *
4189797 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * **
4189862 TGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTATGCTC
66 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTTGAGTTCGACTACACTC
* *
4189927 AGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
127 AGCTCAAGGGCACATCATTTGCAGCATAACTTAAGTCG
* *** * * *
4189965 AGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATCA
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACT-ACGCTCAGC-TCCAAGGCACATCA
* * * * * *
4190025 TTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGC
64 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC---C-AAAGACCCTTGAGTTCGACTACAC
*
4190090 TCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCG
125 TCAGCT-CAAGGGCACATCATTTGCAGCATAACTTAAGTCG
* *** * * * *
4190130 AGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCAT
* * * * * * * * **
4190191 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTATGCT
65 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCTTGAGTTCGACTACACT
* * *
4190256 CAGCTCAACGGCACATCATTTGCAGCATACCTGAAGTCG
126 CAGCTCAAGGGCACATCATTTGCAGCATAACTTAAGTCG
*
4190295 AGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* * *
4190359 TTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGA-CCTTCGAGTTCGACTACGCTCAG
65 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTT-GAGTTCGACTACACTCAG
* * *
4190423 CTCCAA-GGCATATCATTTGTAGCACAACTTAAGTCG
129 CT-CAAGGGCACATCATTTGCAGCATAACTTAAGTCG
*
4190459 AGAAGGGCTATCTGCCAA
1 AGAAGGGTTATCTGCCAA
4190477 AGACCCCCGA
Statistics
Matches: 1025, Mismatches: 119, Indels: 59
0.85 0.10 0.05
Matches are distributed among these distances:
163 20 0.02
164 242 0.24
165 612 0.60
166 16 0.02
167 3 0.00
168 83 0.08
169 49 0.05
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (164 bp):
AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACACTCAGCT
CAAGGGCACATCATTTGCAGCATAACTTAAGTCG
Found at i:4189906 original size:249 final size:246
Alignment explanation
Indices: 4189118--4190521 Score: 1592
Period size: 249 Copynumber: 5.7 Consensus size: 246
4189108 TGAACAAACT
* * * * *
4189118 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACAAAGACCTTTGAGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CACAAAGACCTTTGAGTTCGACTACGCT
* * *
4189183 CAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
65 CAGCTCAACGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCC
* *
4189248 AAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTA
130 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA
4189313 TCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
195 TCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * ** * * * * * *
4189365 ATTCGTAATATAGCTTAAGTCGAGAAGAGCTATCTGC-CAAAGTCCCTTAAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCACAAAGACCTTTGAGTTCGACTACGCTC
* * * * * * *
4189429 AGCTTCAAGGGCATATCATTTACAGCATAACTCAACG-CTAGAAGGGTTATCTGTCAACAAAAAC
66 AGC-TCAACGGCACATCATTTACAGCATAACTTAA-GTCGAGAAGGGCTATC--T-ACCAAAGAC
**** * * * *
4189493 CTTTTAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
126 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
* * * * * * *
4189557 GCTATCTG----CCAAAGA-CTCTTAAGTTCAATTACACTCAGCTTCGAGGGCACATC
191 GTTATCTGCCAACCAAAGACCT-TTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * * *
4189610 ATTTACAGCATAACTCAAGGCTAGAAGGGTTTTCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CA-C-AAAGACCTTTGAGTTCGACTACG
*
4189675 CTCAGCTCAACGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
63 CTCAGCTCAACGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
*
4189740 CCGAGTTCGATTACACTCAGCTTCGAGGGCACTTCATTTGCAGCATAACTTAAGTCGAGAAGGGT
128 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* * *
4189805 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCATATC
193 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * *
4189859 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C-AC-AAAGACCTTTGAGTTCGACTACG
* * *
4189924 CTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
63 CTCAGCTCAACGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
* * *
4189989 CCGAGTTCGATCACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGT
128 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* *
4190054 TATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
193 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*** * *
4190108 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCACAAAGACCTTTGAGTTCGACTACGCTC
* * * * * * *
4190172 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGTC
66 AGC-TCAACGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATC--T-ACC-AAAGAC
*** * ** * * * *
4190237 CTTTGAGTTCGACTATGCTCAGC-TCAACGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGG
126 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
*
4190301 GTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
191 GTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * *
4190357 ATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTAC-CAAAGACCTTCGAGTTCGACTACGCTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCACAAAGACCTTTGAGTTCGACTACGCTC
* ** * *
4190421 AGCTCCAA-GGCATATCATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
66 AGCT-CAACGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCC
* * * *
4190485 GAGTTTGATTACACTCAACTTCGAGGTCATATCATTT
130 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
4190522 ACAACATAGC
Statistics
Matches: 959, Mismatches: 171, Indels: 56
0.81 0.14 0.05
Matches are distributed among these distances:
243 2 0.00
244 44 0.05
245 123 0.13
246 125 0.13
247 28 0.03
248 125 0.13
249 466 0.49
250 44 0.05
251 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (246 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCACAAAGACCTTTGAGTTCGACTACGCTC
AGCTCAACGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCG
AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
CTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:4190410 original size:414 final size:410
Alignment explanation
Indices: 4189118--4190473 Score: 1610
Period size: 414 Copynumber: 3.3 Consensus size: 410
4189108 TGAACAAACT
* * * * * * *
4189118 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACAAAGACCTTTGAGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCTTCGAGTTCGACTACACT
* * *
4189183 CAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC--C-AAAGACC
64 CAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCTACAAAAGACC
**** * * * * * *
4189245 CCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGG
129 TTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* *** * * * *
4189310 TTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTCGTA-A
193 CTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT--TACA
* * * * * * * *
4189373 -TATAGCTTAAGTCGAGAAGAGCTATC--TG-CCAAAGTCCCTTAAGTTCGATTACACTCAGCTT
252 GCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGTCCTTTGAGTTCGACTACGCTCAGC-T
* * * *
4189434 CAAGGGCATATCATTTACAGCATAACTCAACG-CTAGAAGGGTTATCTGTCAA-CAAAAACCTTT
316 CAA-GGCATATCATTTGCAGCATAACTCAA-GTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTT
* *
4189497 TAGTTCGACTACACTCAGCTCCAA-GGCACATC
379 GAGTTCGACTACGCTCAGCT-CAACGGCACATC
* * *
4189529 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCTT-AAGTTCAATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CTTCGAGTTCGACTACACTC
* * * * * *
4189593 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTTTCTG-TGACCAAAAGA
65 AGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCT-A-CAAAAGA
*
4189657 CCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTACAGCATAGCTTAAGTCGAGAAG
127 CCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * *
4189721 GGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACTTCATTTGCAGCAT
191 GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
** * * *
4189786 AACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAA
256 AACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGTCCTTTGAGTTCGACTACGCTCAGCT-CAA
* * *
4189851 GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTT
319 GGCATATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTT
*
4189916 CGACTATGCTCAGCTCAACGGCACATC
384 CGACTACGCTCAGCTCAACGGCACATC
**
4189943 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGA-TCACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACT-ACACTC
* * *
4190007 AGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGAC
65 AGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCT-ACAAAAGAC
4190072 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
128 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
4190137 CTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
193 CTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* * * *
4190202 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTATGCTCAGCTCAACGG
258 CTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGTCCTTTGAGTTCGACTACGCTCAGCTCAA-GG
* * * *
4190267 CACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCG
321 CATATCATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCG
4190332 ACTACGCTCAGCTCAACGGCACATC
386 ACTACGCTCAGCTCAACGGCACATC
* * *
4190357 ATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGACTACGCTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCA
* * * * *
4190422 GCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGC
66 GCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGC
4190474 CAAAGACCCC
Statistics
Matches: 812, Mismatches: 107, Indels: 50
0.84 0.11 0.05
Matches are distributed among these distances:
408 1 0.00
409 49 0.06
410 79 0.10
411 31 0.04
412 2 0.00
413 136 0.17
414 508 0.63
415 6 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (410 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCA
GCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCTACAAAAGACCTT
TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
TCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTT
AAGTCGAGAAGGGTTATCTGTGACCAAAGTCCTTTGAGTTCGACTACGCTCAGCTCAAGGCATAT
CATTTGCAGCATAACTCAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTAC
GCTCAGCTCAACGGCACATC
Found at i:4191202 original size:36 final size:37
Alignment explanation
Indices: 4191155--4191340 Score: 150
Period size: 36 Copynumber: 5.0 Consensus size: 37
4191145 TGAAAATACG
**
4191155 TATATAATATATGGTTTTT-AAAACACTTTTAAAAAC
1 TATATAATATATAATTTTTCAAAACACTTTTAAAAAC
* *
4191191 TATATATTATAT-ATATTTTCAAAACA-TTTTAAAAAAA
1 TATATAATATATAAT-TTTTCAAAACACTTTT-AAAAAC
* *
4191228 TATATAATATATAATTTTTGAAAA-ACATTTTGAAAAC
1 TATATAATATATAATTTTTCAAAACAC-TTTTAAAAAC
* * * *
4191265 -ATATAATATATAATTTTT-AGAGCATTTTTGAAAAC
1 TATATAATATATAATTTTTCAAAACACTTTTAAAAAC
* *
4191300 TTATATATAATATATAATTTTTTAAAAACATTTTTTAAAAA
1 ---TATATAATATATAA-TTTTTCAAAACA-CTTTTAAAAA
4191341 AAATTATATA
Statistics
Matches: 123, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
35 13 0.11
36 39 0.32
37 34 0.28
38 6 0.05
39 13 0.11
40 5 0.04
41 4 0.03
42 9 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATAATATATAATTTTTCAAAACACTTTTAAAAAC
Found at i:4191312 original size:75 final size:72
Alignment explanation
Indices: 4191155--4191360 Score: 206
Period size: 73 Copynumber: 2.8 Consensus size: 72
4191145 TGAAAATACG
** * *
4191155 TATATAATATATGGTTTTT-AAAACACTTTTAAAAACTATATATTATATATATTTTCAAAACATT
1 TATATAATATATAATTTTTAAAAACACTTTTAAAAAC-ATATAATATATA-ATTTTTAAAACATT
4191219 TTAAAAAAA
64 TTAAAAAAA
* * *
4191228 TATATAATATATAATTTTTGAAAAACA-TTTTGAAAACATATAATATATAATTTTTAGAGCATTT
1 TATATAATATATAATTTTT-AAAAACACTTTTAAAAACATATAATATATAATTTTTAAAACA-TT
**
4191292 TTGAAAACTTA
64 TT-AAAA-AAA
* *
4191303 TATATAATATATAATTTTTTAAAAACATTTTTTAAAAA-A-A-ATTATATAATTTTTAAAA
1 TATATAATATATAA-TTTTTAAAAACA-CTTTTAAAAACATATAATATATAATTTTTAAAA
4191361 GAACATTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
72 9 0.08
73 32 0.29
74 28 0.25
75 29 0.26
76 6 0.05
77 8 0.07
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (72 bp):
TATATAATATATAATTTTTAAAAACACTTTTAAAAACATATAATATATAATTTTTAAAACATTTT
AAAAAAA
Found at i:4191341 original size:14 final size:13
Alignment explanation
Indices: 4191316--4191340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4191306 ATAATATATA
4191316 ATTTTTTAAAAAC
1 ATTTTTTAAAAAC
4191329 ATTTTTTAAAAA
1 ATTTTTTAAAAA
4191341 AAATTATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTTTAAAAAC
Found at i:4191356 original size:35 final size:35
Alignment explanation
Indices: 4191310--4191406 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
4191300 TTATATATAA
4191310 TATATAATTTTTTAAAAACATTTTTTAAAAAAAAT
1 TATATAATTTTTTAAAAACATTTTTTAAAAAAAAT
*
4191345 TATATAATTTTTAAAAGAACA-TTTTT---AAAAAT
1 TATATAATTTTTTAAA-AACATTTTTTAAAAAAAAT
* *
4191377 TAT-TAGTTTTTTGAAAAACATTTTTGAAAA
1 TATATAATTTTTT-AAAAACATTTTTTAAAA
4191407 TTTATATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
31 11 0.21
32 16 0.31
35 21 0.40
36 4 0.08
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (35 bp):
TATATAATTTTTTAAAAACATTTTTTAAAAAAAAT
Found at i:4191388 original size:32 final size:31
Alignment explanation
Indices: 4191310--4191414 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 31
4191300 TTATATATAA
*
4191310 TATATAATTTTTTAAAAACATTTTTTAAAAAAAAT
1 TATATAATTTTTAAAAAACA-TTTTT---AAAAAT
4191345 TATATAATTTTTAAAAGAACATTTTTAAAAAT
1 TATATAATTTTTAAAA-AACATTTTTAAAAAT
* * *
4191377 TAT-TAGTTTTTTGAAAAACATTTTTGAAAATT
1 TATATA-ATTTTTAAAAAACATTTTT-AAAAAT
4191409 TATATA
1 TATATA
4191415 TAGTATATAG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
31 11 0.18
32 25 0.40
33 2 0.03
35 20 0.32
36 4 0.06
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (31 bp):
TATATAATTTTTAAAAAACATTTTTAAAAAT
Found at i:4191482 original size:13 final size:13
Alignment explanation
Indices: 4191464--4191489 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4191454 ATATTATATA
4191464 GTTTTTATTTATT
1 GTTTTTATTTATT
4191477 GTTTTTATTTATT
1 GTTTTTATTTATT
4191490 ATTATTCACC
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:4211560 original size:18 final size:18
Alignment explanation
Indices: 4211537--4211586 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
4211527 CTGCACTTAT
4211537 TTTTCAAAATCAAAACAA
1 TTTTCAAAATCAAAACAA
4211555 TTTTCAAAATCAAAACAA
1 TTTTCAAAATCAAAACAA
4211573 TTTTCAAAATCAAA
1 TTTTCAAAATCAAA
4211587 GATTGACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (18 bp):
TTTTCAAAATCAAAACAA
Found at i:4214058 original size:17 final size:17
Alignment explanation
Indices: 4214036--4214080 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
4214026 AAATATTCTT
4214036 ATCTTTATTTATTCATC
1 ATCTTTATTTATTCATC
4214053 ATCTTTATTTATTCATC
1 ATCTTTATTTATTCATC
*
4214070 ACCTTTATTTA
1 ATCTTTATTTA
4214081 ATTGCTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (17 bp):
ATCTTTATTTATTCATC
Found at i:4218125 original size:23 final size:23
Alignment explanation
Indices: 4218068--4218125 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
4218058 AATGGTCATG
*
4218068 GTATCGATACTACTATATAAAGT
1 GTATCGATACTCCTATATAAAGT
*
4218091 GTATCGATACTCCTATGTAAAGT
1 GTATCGATACTCCTATATAAAGT
4218114 GTATCGATACTC
1 GTATCGATACTC
4218126 TTTTCAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (23 bp):
GTATCGATACTCCTATATAAAGT
Found at i:4230871 original size:14 final size:16
Alignment explanation
Indices: 4230839--4230872 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4230829 GTAATCTATA
4230839 TTTAATTTTATTCGTT
1 TTTAATTTTATTCGTT
4230855 TTTAATTTT-TT-GTT
1 TTTAATTTTATTCGTT
4230869 TTTA
1 TTTA
4230873 TTCAATTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 2 0.11
16 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTAATTTTATTCGTT
Found at i:4235378 original size:138 final size:138
Alignment explanation
Indices: 4235094--4235378 Score: 328
Period size: 137 Copynumber: 2.1 Consensus size: 138
4235084 TATACCGAAG
** * *
4235094 TGTCGAAATGGAAAATCACAAACTCGTTATAAATTCCATGGATGAACACATAGTGTCGAAATTAC
1 TGTCGAAATGGAAAATCACAAACTCAATATAAATACCATGGATGAACACATAGTGTCGAAAGTAC
* * * *
4235159 ATCTAGTACTGATATGAAAATGCACCATTATACATTAAACAAAATCGGTCGATAACTATTATACA
66 ATCTAGTACTAATATAAAAATGCACCATTATACATTAAACAAAATCGATCGATAACCATTATACA
*
4235224 TAATTGTA
131 CAATTGTA
* * * * * * *
4235232 -ATCAAAATGGTAATTTACAAACTCAATATGAATACCAT-GATTGAACATC-TAGTGTTGAAAGT
1 TGTCGAAATGGAAAATCACAAACTCAATATAAATACCATGGA-TGAACA-CATAGTGTCGAAAGT
* *
4235294 ACA-CATAGTACTAATACTAAAAATGCACCATTATGCATTACACAAAATCGATCGATAACCATTA
64 ACATC-TAGTACTAATA-TAAAAATGCACCATTATACATTAAACAAAATCGATCGATAACCATTA
*
4235358 TATACAATT-TA
127 TACACAATTGTA
4235369 TGTCGAAATG
1 TGTCGAAATG
4235379 CACCTATGTC
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
136 3 0.02
137 61 0.50
138 57 0.47
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (138 bp):
TGTCGAAATGGAAAATCACAAACTCAATATAAATACCATGGATGAACACATAGTGTCGAAAGTAC
ATCTAGTACTAATATAAAAATGCACCATTATACATTAAACAAAATCGATCGATAACCATTATACA
CAATTGTA
Found at i:4240683 original size:112 final size:112
Alignment explanation
Indices: 4240486--4240714 Score: 370
Period size: 112 Copynumber: 2.0 Consensus size: 112
4240476 GTTATAGGTG
*
4240486 CATTTCGACATACTTCATGTATGAAAGTTATCAATCGATTTTGCTTAATGCATAACGATGCATTT
1 CATTTCGACATACTTCATGTATGAAAGTTATCAATCAATTTTGCTTAATGCATAACGATGCATTT
** * *
4240551 TTTACATAAAAGGTTCCACCCATGGTATTCATAATGAGGTGAATTAC
66 TCGACATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAAATAC
* *
4240598 CATTTCGACATACTTCGTGTATGAAAGTTATCGATCAATTTTGCTTAATGCATAAC-AGTGCATT
1 CATTTCGACATACTTCATGTATGAAAGTTATCAATCAATTTTGCTTAATGCATAACGA-TGCATT
*
4240662 TTCGACATAAAATGTGCCACCCATGGTATTCATAATGAGGTGAAATAC
65 TTCGACATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAAATAC
4240710 CATTT
1 CATTT
4240715 TGGCATTTCG
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
111 1 0.01
112 107 0.99
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (112 bp):
CATTTCGACATACTTCATGTATGAAAGTTATCAATCAATTTTGCTTAATGCATAACGATGCATTT
TCGACATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAAATAC
Found at i:4247061 original size:93 final size:93
Alignment explanation
Indices: 4246902--4247100 Score: 398
Period size: 93 Copynumber: 2.1 Consensus size: 93
4246892 AGGATGAACA
4246902 ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
1 ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
4246967 ATACCATGGATTCTATAATGCAGAAATG
66 ATACCATGGATTCTATAATGCAGAAATG
4246995 ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
1 ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
4247060 ATACCATGGATTCTATAATGCAGAAATG
66 ATACCATGGATTCTATAATGCAGAAATG
4247088 ATATCGATACTGA
1 ATATCGATACTGA
4247101 AAGGAGTATC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 106 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (93 bp):
ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
ATACCATGGATTCTATAATGCAGAAATG
Found at i:4247156 original size:93 final size:92
Alignment explanation
Indices: 4246902--4247136 Score: 294
Period size: 93 Copynumber: 2.5 Consensus size: 92
4246892 AGGATGAACA
* * ** *
4246902 ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
1 ATATCGATACTGAAGCAATTAGTATCGATACTATAGAAGATATCCATACTAAGAGG-AGGTATCG
4246967 ATACCATGGATTCTATAATGCAGAAATG
65 ATACCATGGATTCTATAATGCAGAAATG
* * ** *
4246995 ATATCGATACTGATGCAATTAGTATCGATACTATTGTGGATATCGATACTAAGAGGAAGGTATCG
1 ATATCGATACTGAAGCAATTAGTATCGATACTATAGAAGATATCCATACTAAGAGG-AGGTATCG
4247060 ATACCATGGATTCTATAATGCAGAAATG
65 ATACCATGGATTCTATAATGCAGAAATG
* * * *
4247088 ATATCGATACTGAAAGGAGTATCGTATC-ATAGTATAGAAG-TATCCATAC
1 ATATCGATACTG-AAGCAAT-TAGTATCGATACTATAGAAGATATCCATAC
4247137 CATACTAGGG
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
93 113 0.86
94 12 0.09
95 6 0.05
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (92 bp):
ATATCGATACTGAAGCAATTAGTATCGATACTATAGAAGATATCCATACTAAGAGGAGGTATCGA
TACCATGGATTCTATAATGCAGAAATG
Found at i:4247800 original size:112 final size:112
Alignment explanation
Indices: 4247670--4247887 Score: 382
Period size: 112 Copynumber: 1.9 Consensus size: 112
4247660 ATTTCAACAT
*
4247670 ACTTCGTGTATGAAAGTTATCGATCGATTTTGTTTAATGCATAACGATACATTTTTGGCATAAAA
1 ACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCATAACGATACATTTTTGGCATAAAA
*
4247735 GGTGCCACCCATGGTATTCATAATGAGGTGAATTACCATTTTGACAG
66 GGTGCCACCCATGGTATTCATAATGAGGTGAATCACCATTTTGACAG
** * *
4247782 ACTTCGTGTATGAAAGTTATCGATTTATTTTGCTTAATGCATAACGGTGCATTTTTGGCATAAAA
1 ACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCATAACGATACATTTTTGGCATAAAA
4247847 GGTGCCACCCATGGTATTCATAATGAGGTGAATCACCATTT
66 GGTGCCACCCATGGTATTCATAATGAGGTGAATCACCATTT
4247888 AGGCACTTCG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 100 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (112 bp):
ACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCATAACGATACATTTTTGGCATAAAA
GGTGCCACCCATGGTATTCATAATGAGGTGAATCACCATTTTGACAG
Found at i:4251597 original size:137 final size:137
Alignment explanation
Indices: 4251314--4251597 Score: 369
Period size: 137 Copynumber: 2.1 Consensus size: 137
4251304 TGCACCGAAG
* *
4251314 TGTCGAAATGGAAATTCACAAACTCATTATGAATTCCATGGATACACACATAGTGACAAAAGTAT
1 TGTCGAAATGGAAATTCACAAACTCATTATGAATACCATGGATACACACATAGTGACAAAAGTAG
** *
4251379 ATCTAGTACTGATACGAAAATGCACCATTATGCATAAACAAAATCGATCGATAACTTTTATACAT
66 ATCTAGTACTGATACGAAAATGCACCATTATGCATAAACAAAATCGATCGATAACCATTATACAC
4251444 AATTGTA
131 AATTGTA
* * * * * * ***
4251451 TATCAAAATGGTAATTCATAAACTCATTATGAATACCAT-GATTGCATATC-TAGTGTTGAAAGT
1 TGTCGAAATGGAAATTCACAAACTCATTATGAATACCATGGA-TACACA-CATAGTGACAAAAGT
*
4251514 AGA-CTTAGTACTGATACGAAAATGCACCATTATGCATTACACAAAATCGATCGATAACCATTAT
64 AGATC-TAGTACTGATACGAAAATGCACCATTATGCA-TAAACAAAATCGATCGATAACCATTAT
4251578 ACACAATT-TA
127 ACACAATTGTA
4251588 TGTCGAAATG
1 TGTCGAAATG
4251598 CACCTATGAC
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
136 3 0.02
137 91 0.72
138 32 0.25
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (137 bp):
TGTCGAAATGGAAATTCACAAACTCATTATGAATACCATGGATACACACATAGTGACAAAAGTAG
ATCTAGTACTGATACGAAAATGCACCATTATGCATAAACAAAATCGATCGATAACCATTATACAC
AATTGTA
Found at i:4253613 original size:11 final size:11
Alignment explanation
Indices: 4253597--4253621 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4253587 TTGAGGAACT
4253597 TTTCTCTTTTC
1 TTTCTCTTTTC
4253608 TTTCTCTTTTC
1 TTTCTCTTTTC
4253619 TTT
1 TTT
4253622 TTTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTCTTTTC
Found at i:4259303 original size:59 final size:59
Alignment explanation
Indices: 4259206--4259386 Score: 181
Period size: 59 Copynumber: 3.1 Consensus size: 59
4259196 CTAACCCGAG
* ** * ** *
4259206 TATGACACATAAGGTCGTGTCCACCATCTGTACTAGTTATACATTAGTACAATCACGAA
1 TATGACACATAAGGTTGTACCCACCATATACACTAGTTATACATTAGTGCAATCACGAA
* * * *
4259265 TATGACACATACA-GTTGTGCCCACTATACT-CACTAGTTATA-ATTTATTGCAATCCCGAA
1 TATGACACATA-AGGTTGTACCCACCATA-TACACTAGTTATACA-TTAGTGCAATCACGAA
* *
4259324 TATGACACATAAGGTTGTACCCACCATATACATTAGTTATAC-TTCAGCGCAATCACGAA
1 TATGACACATAAGGTTGTACCCACCATATACACTAGTTATACATT-AGTGCAATCACGAA
4259383 TATG
1 TATG
4259387 CAGCCTGCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
58 5 0.05
59 94 0.93
60 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (59 bp):
TATGACACATAAGGTTGTACCCACCATATACACTAGTTATACATTAGTGCAATCACGAA
Found at i:4259553 original size:22 final size:23
Alignment explanation
Indices: 4259523--4259568 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4259513 CATACCTAAA
*
4259523 ATATCATTCGCAATAAACATCAT
1 ATATCATTCACAATAAACATCAT
**
4259546 ATAT-ATTCATTATAAACATCAT
1 ATATCATTCACAATAAACATCAT
4259568 A
1 A
4259569 CATAATAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATCATTCACAATAAACATCAT
Found at i:4265392 original size:16 final size:15
Alignment explanation
Indices: 4265367--4265400 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
4265357 TTTAATATCA
*
4265367 TAATATTAATTATAAT
1 TAATACTAATTAT-AT
4265383 TAATACTAATTATAT
1 TAATACTAATTATAT
4265398 TAA
1 TAA
4265401 GAAATTGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATACTAATTATAT
Found at i:4266035 original size:58 final size:58
Alignment explanation
Indices: 4265866--4266044 Score: 232
Period size: 59 Copynumber: 3.1 Consensus size: 58
4265856 CTAACCCTAG
* * * * *
4265866 TATGACACATAAGGTCATGCCCACCATCTGCACTAGTTATGCATTAGTGCAGTCCCGAA
1 TATGACACATAAGGTCGTG-CCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
* * *
4265925 TATGACACATATGGTCGTTCCCACCATACGCACTAGTTATACTTTAGTGCAATCCCGAA
1 TATGACACATAAGGTCG-TGCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
* * * *
4265984 TGTGACACATAAGGTCGTGCCACCATATACACTAGTTATACTTTAGCGCAATCCTGAA
1 TATGACACATAAGGTCGTGCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
4266042 TAT
1 TAT
4266045 TCAGCTTGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
58 38 0.37
59 64 0.62
60 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (58 bp):
TATGACACATAAGGTCGTGCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
Found at i:4267564 original size:30 final size:31
Alignment explanation
Indices: 4267503--4267579 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
4267493 AAAAATCTAC
* *
4267503 AACTTTTCCAAAAGTATCAATTTGGCCCCCT
1 AACTTTTCAAAAATTATCAATTTGGCCCCCT
*
4267534 AACTTTTCAAAAATTATCAATTTGG-TCCCT
1 AACTTTTCAAAAATTATCAATTTGGCCCCCT
4267564 AACTTTTCAAAAATTA
1 AACTTTTCAAAAATTA
4267580 CATAATGGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
30 20 0.47
31 23 0.53
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.36
Consensus pattern (31 bp):
AACTTTTCAAAAATTATCAATTTGGCCCCCT
Found at i:4267589 original size:29 final size:30
Alignment explanation
Indices: 4267503--4267591 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 30
4267493 AAAAATCTAC
* * * *
4267503 AACTTTTCCAAAAGTATCAATTTGGCCCCCT
1 AACTTTTCAAAAATTATCAATATGG-TCCCT
*
4267534 AACTTTTCAAAAATTATCAATTTGGTCCCT
1 AACTTTTCAAAAATTATCAATATGGTCCCT
4267564 AACTTTTCAAAAATTA-C-ATAATGGTCCC
1 AACTTTTCAAAAATTATCAAT-ATGGTCCC
4267592 CAAAATTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.04
29 8 0.15
30 20 0.38
31 23 0.43
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTTCAAAAATTATCAATATGGTCCCT
Found at i:4271522 original size:10 final size:10
Alignment explanation
Indices: 4271496--4271543 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
4271486 GCTCTCAGCT
4271496 TCAATTCC-A
1 TCAATTCCAA
*
4271505 TGCCATTCCAA
1 T-CAATTCCAA
4271516 TCAATTCCATA
1 TCAATTCCA-A
*
4271527 TCAATTCCTA
1 TCAATTCCAA
4271537 TCAATTC
1 TCAATTC
4271544 AATAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 1 0.03
10 21 0.64
11 11 0.33
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.35
Consensus pattern (10 bp):
TCAATTCCAA
Found at i:4277108 original size:12 final size:12
Alignment explanation
Indices: 4277091--4277129 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4277081 AAGTATGCAC
4277091 TGCATTTTTAGT
1 TGCATTTTTAGT
4277103 TGCATTTTTAGT
1 TGCATTTTTAGT
4277115 TGCA--TTTAGT
1 TGCATTTTTAGT
4277125 TGCAT
1 TGCAT
4277130 ATAGGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
12 16 0.62
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.54
Consensus pattern (12 bp):
TGCATTTTTAGT
Found at i:4277640 original size:168 final size:170
Alignment explanation
Indices: 4277362--4277699 Score: 662
Period size: 168 Copynumber: 2.0 Consensus size: 170
4277352 AGCAGGTATG
4277362 GCGAAACCCCCTATGTCATATGCCAGTTGGATGACCTACTTCACGTGCAAGCAAGCCATGATTGT
1 GCGAAACCCCCTATGTCATATGCCAGTTGGATGACCTACTTCACGTGCAAGCAAGCCATGATTGT
4277427 TCTGACAGCCGCCAGCAGGCAGCCACCTTTCCTTTTTAAGCTTGGGAAATTAAT-ACGGCTAATT
66 TCTGACAGCCGCCAGCAGGCAGCCACCTTTCCTTTTTAAGCTTGGGAAATTAATAACGGCTAATT
4277491 AAGGAAACTCC-AAAGTATGCAAAGCCCTAGGAGATTTTT
131 AAGGAAACTCCAAAAGTATGCAAAGCCCTAGGAGATTTTT
4277530 GCGAAACCCCCTATGTCATATGCCAGTTGGATGACCTACTTCACGTGCAAGCAAGCCATGATTGT
1 GCGAAACCCCCTATGTCATATGCCAGTTGGATGACCTACTTCACGTGCAAGCAAGCCATGATTGT
4277595 TCTGACAGCCGCCAGCAGGCAGCCACCTTTCCTTTTTAAGCTTGGGAAATTAATAACGGCTAATT
66 TCTGACAGCCGCCAGCAGGCAGCCACCTTTCCTTTTTAAGCTTGGGAAATTAATAACGGCTAATT
4277660 AAGGAAACTCCAAAAGTATGCAAAGCCCTAGGAGATTTTT
131 AAGGAAACTCCAAAAGTATGCAAAGCCCTAGGAGATTTTT
4277700 CCTTATAAAT
Statistics
Matches: 168, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
168 119 0.71
169 21 0.12
170 28 0.17
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (170 bp):
GCGAAACCCCCTATGTCATATGCCAGTTGGATGACCTACTTCACGTGCAAGCAAGCCATGATTGT
TCTGACAGCCGCCAGCAGGCAGCCACCTTTCCTTTTTAAGCTTGGGAAATTAATAACGGCTAATT
AAGGAAACTCCAAAAGTATGCAAAGCCCTAGGAGATTTTT
Found at i:4280161 original size:24 final size:24
Alignment explanation
Indices: 4280134--4280239 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
4280124 AAACGGAGAT
*
4280134 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
4280158 ATCAGATATCAGAACAGAA-TCTAG
1 ATCAGAAATCAAAACAGAATTC-AG
* * * * *
4280182 GTTAGGAATCAGAACA-TATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
4280205 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
4280229 ATCAGAAATCA
1 ATCAGAAATCA
4280240 GATAAAATAT
Statistics
Matches: 61, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
23 15 0.25
24 46 0.75
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:4280239 original size:47 final size:48
Alignment explanation
Indices: 4280134--4280241 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 48
4280124 AAACGGAGAT
* * *
4280134 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCTAG
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCTAA
* * * *
4280182 GTTAGGAATCAGAACAT-ATTCAGATCAGATGTCAAAACAGAAT-TCAA
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCT-AA
4280229 ATCAGAAATCAGA
1 ATCAGAAATCAGA
4280242 TAAAATATTC
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
46 1 0.02
47 35 0.71
48 13 0.27
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCTAA
Found at i:4282120 original size:15 final size:15
Alignment explanation
Indices: 4282102--4282132 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4282092 CCGGTCGCCA
*
4282102 GTCAACGGGTCAACG
1 GTCAACGGGTAAACG
4282117 GTCAACGGGTAAACG
1 GTCAACGGGTAAACG
4282132 G
1 G
4282133 GTCGGGTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.35, T:0.13
Consensus pattern (15 bp):
GTCAACGGGTAAACG
Found at i:4282149 original size:18 final size:18
Alignment explanation
Indices: 4282122--4282194 Score: 91
Period size: 18 Copynumber: 4.3 Consensus size: 18
4282112 CAACGGTCAA
4282122 CGGGTAAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
*
4282140 CGGGTCAACGGGTC--G-
1 CGGGTAAACGGGTCGGGT
*
4282155 -GGGTAAACAGGTCGGGT
1 CGGGTAAACGGGTCGGGT
*
4282172 CGGGTCAACGGGTCGGGT
1 CGGGTAAACGGGTCGGGT
4282190 CGGGT
1 CGGGT
4282195 TGTGACGGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 11 0.24
16 2 0.04
18 33 0.72
ACGTcount: A:0.15, C:0.19, G:0.49, T:0.16
Consensus pattern (18 bp):
CGGGTAAACGGGTCGGGT
Found at i:4282153 original size:8 final size:8
Alignment explanation
Indices: 4282102--4282135 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
4282092 CCGGTCGCCA
4282102 GTCAACGG
1 GTCAACGG
4282110 GTCAAC-G
1 GTCAACGG
4282117 GTCAACGG
1 GTCAACGG
*
4282125 GTAAACGG
1 GTCAACGG
4282133 GTC
1 GTC
4282136 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:4282168 original size:32 final size:32
Alignment explanation
Indices: 4282123--4282188 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
4282113 AACGGTCAAC
*
4282123 GGGTAAACGGGTCGGGTCGGGTCAACGGGTCG
1 GGGTAAACAGGTCGGGTCGGGTCAACGGGTCG
4282155 GGGTAAACAGGTCGGGTCGGGTCAACGGGTCG
1 GGGTAAACAGGTCGGGTCGGGTCAACGGGTCG
4282187 GG
1 GG
4282189 TCGGGTTGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.17, C:0.18, G:0.50, T:0.15
Consensus pattern (32 bp):
GGGTAAACAGGTCGGGTCGGGTCAACGGGTCG
Found at i:4284118 original size:117 final size:118
Alignment explanation
Indices: 4283912--4284239 Score: 543
Period size: 117 Copynumber: 2.9 Consensus size: 118
4283902 TGTATATTTT
* *
4283912 CCAGAACCATACACCTA-CTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
1 CCAGAACCGTACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
*
4283976 CGGTAATAACTTTTCCATCCAATCACACCAATCACCCAAAATGTGTAGGTTCC
66 CGGTAATAACTTTCCCATCCAATCACACCAATCACCCAAAATGTGTAGGTTCC
*
4284029 CCAGAACCGTACACCCACCTG-ACACCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCATG
1 CCAGAACCGTACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
4284093 CGGTAATAACTTTCCCATCCAAT--CA-C---CACCCAAAATGTGTAGGTTCC
66 CGGTAATAACTTTCCCATCCAATCACACCAATCACCCAAAATGTGTAGGTTCC
4284140 CCAGAACCGTACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAA---GAGGAGCCTG
1 CCAGAACCGTACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
4284202 CGGTAATAACTTTCCCATCCAATCACACCAATCACCCA
66 CGGTAATAACTTTCCCATCCAATCACACCAATCACCCA
4284240 GTAACAGTAA
Statistics
Matches: 198, Mismatches: 5, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
109 32 0.16
111 44 0.22
112 31 0.16
114 1 0.01
115 8 0.04
117 79 0.40
118 3 0.02
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (118 bp):
CCAGAACCGTACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
CGGTAATAACTTTCCCATCCAATCACACCAATCACCCAAAATGTGTAGGTTCC
Found at i:4285061 original size:29 final size:29
Alignment explanation
Indices: 4285029--4285165 Score: 84
Period size: 29 Copynumber: 4.7 Consensus size: 29
4285019 TTTTTTACAA
* *
4285029 TAATTACCAAAATTGCACC-CTTTTCGAAT
1 TAATTACCAAAATAGCACCAATTTT-GAAT
*
4285058 TAATTCCCAAAATAGCACCAATTTTGAAT
1 TAATTACCAAAATAGCACCAATTTTGAAT
* * * ***
4285087 TAATTCCCAGAATATCACTTTTTTTCCCGAA-
1 TAATTACCAAAATAGCACCAATTTT---GAAT
* * *
4285118 -AATTACCAAAATAGCA-CTAGTTCGAAT
1 TAATTACCAAAATAGCACCAATTTTGAAT
* *
4285145 TAATTCCCAGAATAGCACCAA
1 TAATTACCAAAATAGCACCAA
4285166 AACCGAATTA
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
26 3 0.04
28 14 0.17
29 46 0.55
30 17 0.20
32 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (29 bp):
TAATTACCAAAATAGCACCAATTTTGAAT
Found at i:4285215 original size:18 final size:18
Alignment explanation
Indices: 4285192--4285251 Score: 102
Period size: 18 Copynumber: 3.3 Consensus size: 18
4285182 AGAATAGCAC
4285192 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
4285210 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
4285228 GGTCAACGGGTTGGGGTCG
1 GGTCAACGGG-TCGGGTCG
4285247 GGTCA
1 GGTCA
4285252 TGACAGGGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 28 0.70
19 12 0.30
ACGTcount: A:0.12, C:0.20, G:0.50, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:4291449 original size:24 final size:24
Alignment explanation
Indices: 4291422--4291528 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
4291412 AAACGGAGAT
*
4291422 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
4291446 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
4291470 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
4291494 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
4291518 ATCAGAAATCA
1 ATCAGAAATCA
4291529 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:4291528 original size:48 final size:48
Alignment explanation
Indices: 4291422--4291530 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
4291412 AAACGGAGAT
* * * *
4291422 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
4291470 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
4291518 ATCAGAAATCAGA
1 ATCAGAAATCAGA
4291531 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:4293280 original size:15 final size:15
Alignment explanation
Indices: 4293260--4293305 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
4293250 GTCAACGCAT
4293260 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
4293275 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
*
4293290 GTCGA--GTCAACGG
1 GTCAACGGTCAACGG
4293303 GTC
1 GTC
4293306 GGGTTGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 11 0.37
15 19 0.63
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:4293292 original size:8 final size:7
Alignment explanation
Indices: 4293260--4293289 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
4293250 GTCAACGCAT
4293260 GTCAACG
1 GTCAACG
4293267 GTCAACGG
1 GTCAAC-G
4293275 GTCAACG
1 GTCAACG
4293282 GTCAACG
1 GTCAACG
4293289 G
1 G
4293290 GTCGAGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.27, C:0.27, G:0.33, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:4293300 original size:13 final size:14
Alignment explanation
Indices: 4293267--4293306 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4293257 CATGTCAACG
*
4293267 GTCAACGGGTCAAC
1 GTCAACGGGTCGAC
4293281 GGTCAACGGGTCGA-
1 -GTCAACGGGTCGAC
4293295 GTCAACGGGTCG
1 GTCAACGGGTCG
4293307 GGTTGGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.15
Consensus pattern (14 bp):
GTCAACGGGTCGAC
Found at i:4293316 original size:18 final size:18
Alignment explanation
Indices: 4293287--4293363 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
4293277 CAACGGTCAA
*
4293287 CGGGTCGAGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
4293305 CGGGTTGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
* * *
4293318 CGAGTCGGGTAAACAGGT
1 CGGGTCGGGTCAACGGGT
4293336 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
4293354 CGGGTCGGGT
1 CGGGTCGGGT
4293364 TGTGACCGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
13 10 0.22
18 36 0.78
ACGTcount: A:0.16, C:0.19, G:0.47, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:4293356 original size:31 final size:31
Alignment explanation
Indices: 4293281--4293358 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
4293271 ACGGGTCAAC
* * * *
4293281 GGTCAACGGGTCGAGTCAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTAAACAGGTCGGGTCG
*
4293312 GGTCAACGAGTCGGGTAAACAGGTCGGGTCG
1 GGTCAACGGGTCGGGTAAACAGGTCGGGTCG
4293343 GGTCAACGGGTCGGGT
1 GGTCAACGGGTCGGGT
4293359 CGGGTTGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.45, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTAAACAGGTCGGGTCG
Found at i:4304406 original size:45 final size:46
Alignment explanation
Indices: 4304310--4304417 Score: 150
Period size: 45 Copynumber: 2.4 Consensus size: 46
4304300 ATGCACATAC
4304310 TATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTT
1 TATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTT
*
4304356 GATGCATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATTT
1 TATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATTT
* *
4304401 TATGCATTGATTCACTC
1 TATGCATCGATGCACTC
4304418 TTAGTGCACC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 32 0.57
46 21 0.38
47 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (46 bp):
TATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTT
Found at i:4310009 original size:20 final size:21
Alignment explanation
Indices: 4309984--4310078 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 21
4309974 TTGTGCTTAA
4309984 TGCATCGATACACC-T-AATAG
1 TGCATCGATACACCTTGAAT-G
*
4310004 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* * *
4310026 TGCATCCATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
*
4310047 TGCACCGATGCACACCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
4310070 TGCATCGAT
1 TGCATCGAT
4310079 GCACAAGGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 16 0.27
22 12 0.20
23 21 0.35
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:4310099 original size:43 final size:42
Alignment explanation
Indices: 4310002--4310100 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 42
4309992 TACACCTAAT
* * *
4310002 AGTGCATCGATGCATCCTTGAATGTGCATCCATACACCATGA
1 AGTGCATCGATGCAACCTTGAATGTGCATCCATACACAAGGA
* * * *
4310044 AGGTGCACCGATGCACACCTTGAATGTGCATCGATGCACAAGGTC
1 A-GTGCATCGATGCA-ACCTTGAATGTGCATCCATACACAAGG-A
4310089 A-TGCATCGATGC
1 AGTGCATCGATGC
4310101 GTCAGTCGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.02
43 22 0.48
44 22 0.48
45 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (42 bp):
AGTGCATCGATGCAACCTTGAATGTGCATCCATACACAAGGA
Found at i:4312807 original size:65 final size:63
Alignment explanation
Indices: 4312690--4312897 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 63
4312680 TTTCAAAGTG
* * **
4312690 ATGCACCGATGCACCAATCCATGCATCGATGCACT-ATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
4312753 TC
62 TC
*
4312755 ATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATT
*
4312818 TG
62 TC
* * *
4312820 ATGCATCGATGCACCAGCCATGCATTGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
4312884 ATGCATCGATGCAC
1 ATGCATCGATGCAC
4312898 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 50 0.40
65 65 0.52
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:4321700 original size:14 final size:14
Alignment explanation
Indices: 4321668--4321718 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
4321658 AACTTTTGGG
*
4321668 GTCAAAGTCAACG-
1 GTCAAAGTCATCGT
*
4321681 GTCAAAGACATCGT
1 GTCAAAGTCATCGT
4321695 GTCAAAGTCATCGT
1 GTCAAAGTCATCGT
4321709 GTCAAAGTCA
1 GTCAAAGTCA
4321719 ATGGGTTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
13 11 0.32
14 23 0.68
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (14 bp):
GTCAAAGTCATCGT
Found at i:4321742 original size:14 final size:14
Alignment explanation
Indices: 4321723--4321787 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
4321713 AAGTCAATGG
*
4321723 GTTGACTCAGATGA
1 GTTGACTCAGACGA
* *
4321737 GTTGACTTAGAAGA
1 GTTGACTCAGACGA
* *
4321751 GTTAACTC-GAACAA
1 GTTGACTCAG-ACGA
*
4321765 GTTGACTTAGACGA
1 GTTGACTCAGACGA
4321779 GTTGACTCA
1 GTTGACTCA
4321788 ATATGGGTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
13 1 0.03
14 37 0.95
15 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (14 bp):
GTTGACTCAGACGA
Found at i:4325627 original size:21 final size:21
Alignment explanation
Indices: 4325601--4325821 Score: 295
Period size: 21 Copynumber: 10.6 Consensus size: 21
4325591 GTTTCCAGAT
*
4325601 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4325622 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
4325643 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
4325663 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
4325684 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
4325705 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
4325726 TCGTAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
4325747 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
4325768 TCGTAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
4325789 TCGCAATGAGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4325810 TCGCAATGCGAA
1 TCGCAATGCGAA
4325822 TATGTAAATC
Statistics
Matches: 173, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.09
21 157 0.91
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:4325862 original size:21 final size:21
Alignment explanation
Indices: 4325836--4325910 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
4325826 TAAATCACAA
4325836 TGCGATAGTCGAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCAT
*
4325857 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCAT
* *
4325878 TGCGATAGTCCAAGTTCGCAA
1 TGCGATAGTCGAAGTTCGCAT
4325899 TGCGATAGTCGA
1 TGCGATAGTCGA
4325911 CTATCGCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCAT
Found at i:4325915 original size:167 final size:165
Alignment explanation
Indices: 4325601--4325961 Score: 415
Period size: 167 Copynumber: 2.2 Consensus size: 165
4325591 GTTTCCAGAT
* * *
4325601 TCGCAACGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCG
1 TCGCAATGCGAACTTGGACTATCGCAATGAGAACTTGGACTATCGCAATGCGAATATGTAAATCA
* * *** *
4325666 CAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTGGACTATCGTA
66 CAATGCGATAGTCGACTATCGCAATGCGAACTCGAACTATCGCAACGCGAACTCCAACTATCGCA
*
4325731 ATGCGAACTTCGACTATCGCAACGCGAACTTGGACTA
131 ATGCGAACGTCGACTATCGCAACGC-AA-TTGGACTA
* *
4325768 TCGTAATGCGAACTTCGACTATCGCAATGAGAACTTGGACTATCGCAATGCGAATATGTAAATCA
1 TCGCAATGCGAACTTGGACTATCGCAATGAGAACTTGGACTATCGCAATGCGAATATGTAAATCA
* * * * *** * *
4325833 CAATGCGATAGTCGAAGT-TCGCATTGCGATAGTCGAAGT-TCGCGTTGCGATAGTCCAAGT-TC
66 CAATGCGATAGTCG-ACTATCGCAATGCGA-ACTCGAACTATCGCAACGCGA-ACTCCAACTATC
** *
4325895 GCAATGCGATA-GTCGACTATCGCATTGCAATTTGACTA
128 GCAATGCGA-ACGTCGACTATCGCAACGCAATTGGACTA
*
4325933 TCGCAATGAGAACTTGGACTATCGCAATG
1 TCGCAATGCGAACTTGGACTATCGCAATG
4325962 CGATAGTCGA
Statistics
Matches: 163, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
165 33 0.20
166 2 0.01
167 116 0.71
168 12 0.07
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (165 bp):
TCGCAATGCGAACTTGGACTATCGCAATGAGAACTTGGACTATCGCAATGCGAATATGTAAATCA
CAATGCGATAGTCGACTATCGCAATGCGAACTCGAACTATCGCAACGCGAACTCCAACTATCGCA
ATGCGAACGTCGACTATCGCAACGCAATTGGACTA
Found at i:4325917 original size:21 final size:20
Alignment explanation
Indices: 4325893--4325979 Score: 86
Period size: 21 Copynumber: 4.2 Consensus size: 20
4325883 TAGTCCAAGT
*
4325893 TCGCAATGCGATAGTCGACTA
1 TCGCAATGCGA-ATTCGACTA
* *
4325914 TCGCATTGC-AATTTGACTA
1 TCGCAATGCGAATTCGACTA
* *
4325933 TCGCAATGAGAACTTGGACTA
1 TCGCAATGCGAA-TTCGACTA
*
4325954 TCGCAATGCGATAGTCGACTA
1 TCGCAATGCGA-ATTCGACTA
4325975 TCGCA
1 TCGCA
4325980 TTACTATCGC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.26
20 3 0.06
21 36 0.67
22 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (20 bp):
TCGCAATGCGAATTCGACTA
Found at i:4326038 original size:21 final size:21
Alignment explanation
Indices: 4326005--4326045 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4325995 GATTTATATA
4326005 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
4326026 TTCGCGTTTCGATAGTCCAA
1 TTCGCATTGCGATAGTCCAA
4326046 AATCGCAACG
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:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:4326146 original size:6 final size:6
Alignment explanation
Indices: 4326135--4326183 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
4326125 GACACGTATT
4326135 ACCACG ACCACG ACCACG ACCACG ACC-CG ACCACG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4326181 ACC
1 ACC
4326184 CGAGACGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.24
6 32 0.76
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4326165 original size:23 final size:22
Alignment explanation
Indices: 4326139--4326186 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
4326129 CGTATTACCA
4326139 CGACCACGACCACGACCACGACC
1 CGACCACGACCACGACC-CGACC
4326162 CGACCACGACCACGACCCGACC
1 CGACCACGACCACGACCCGACC
4326184 CGA
1 CGA
4326187 GACGAGACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.29, C:0.52, G:0.19, T:0.00
Consensus pattern (22 bp):
CGACCACGACCACGACCCGACC
Found at i:4326167 original size:17 final size:17
Alignment explanation
Indices: 4326135--4326183 Score: 89
Period size: 17 Copynumber: 2.8 Consensus size: 17
4326125 GACACGTATT
4326135 ACCACGACCACGACCACG
1 ACCACGACC-CGACCACG
4326153 ACCACGACCCGACCACG
1 ACCACGACCCGACCACG
4326170 ACCACGACCCGACC
1 ACCACGACCCGACC
4326184 CGAGACGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (17 bp):
ACCACGACCCGACCACG
Found at i:4326192 original size:5 final size:5
Alignment explanation
Indices: 4326184--4326225 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
4326174 CGACCCGACC
* *
4326184 CGAGA CGAGA CGAGA CGAGA AGAGA AGAGA CGAGA CGAGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
4326226 GATGGCAGCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.40, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:4326717 original size:5 final size:5
Alignment explanation
Indices: 4326709--4326769 Score: 95
Period size: 5 Copynumber: 11.6 Consensus size: 5
4326699 CCGTCCCGTC
4326709 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG
4326761 TCGTGG TCG
1 TCG-GG TCG
4326770 TGGTAATACG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 38 0.69
6 17 0.31
ACGTcount: A:0.00, C:0.20, G:0.56, T:0.25
Consensus pattern (5 bp):
TCGGG
Found at i:4327551 original size:20 final size:20
Alignment explanation
Indices: 4327526--4327563 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4327516 TTTGGTTCAC
*
4327526 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
4327546 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
4327564 GGAATGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:4330146 original size:19 final size:21
Alignment explanation
Indices: 4330124--4330164 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4330114 AATGTCTTTT
4330124 AAAACTAA-TTTTAAGA-AAA
1 AAAACTAATTTTTAAGACAAA
*
4330143 AAAATTAATTTTTAAGACAAA
1 AAAACTAATTTTTAAGACAAA
4330164 A
1 A
4330165 GCTAGTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAACTAATTTTTAAGACAAA
Found at i:4330619 original size:2 final size:2
Alignment explanation
Indices: 4330608--4330640 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4330598 AATTTAAATC
4330608 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4330641 TCAAATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4331934 original size:24 final size:24
Alignment explanation
Indices: 4331907--4331960 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4331897 TTATTATTAT
* *
4331907 TAATGATAA-AAACAATACTTATAA
1 TAATAATAATAAA-AATAATTATAA
*
4331931 TAATAATAATCAAAATAATTATAA
1 TAATAATAATAAAAATAATTATAA
4331955 TAATAA
1 TAATAA
4331961 ATAAAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (24 bp):
TAATAATAATAAAAATAATTATAA
Found at i:4332265 original size:91 final size:91
Alignment explanation
Indices: 4332094--4332343 Score: 369
Period size: 91 Copynumber: 2.7 Consensus size: 91
4332084 CATTATTTGA
* **
4332094 TTGAACAAGTTCTTCTCATTATGAACTTATTC-TCTCTTG-TGGATGAGTTCTTCTCGCTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTTGTTGGATGAGTTCTTCTCATTATGAA
* *
4332157 TTCTTCACTGGAAACACTGATGCAAGG
65 CTCTCCACTGGAAACACTGATGCAAGG
** *
4332184 TTGAACAAGTTAATCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTTATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
*
4332249 TCTCCATTGGAAACACTGATGCAAGG
66 TCTCCACTGGAAACACTGATGCAAGG
* *
4332275 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT-TGTTGGATGAGTTCTTCTCATTATGAA
4332340 CTCT
65 CTCT
4332344 ATATTAAAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
90 33 0.23
91 81 0.57
92 29 0.20
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (91 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
TCTCCACTGGAAACACTGATGCAAGG
Found at i:4332446 original size:136 final size:136
Alignment explanation
Indices: 4332272--4332766 Score: 758
Period size: 136 Copynumber: 3.6 Consensus size: 136
4332262 CACTGATGCA
* * *
4332272 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* ** * * * *
4332337 GAACTCTAT-ATTAAAAATATTGATCCCTCAAGTGAGGTATCACTGATTCGAAATGCCGTCAATC
66 GAACTCT-TCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATC
4332401 GAGTGAT
130 GAGTGAT
*
4332408 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * *
4332473 GAACTCTTCACTGGAAATGTTGATTCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCG
66 GAACTCTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCG
4332538 AGTGAT
131 AGTGAT
*
4332544 AGGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * *
4332609 GAACTTTTCACTGGAAATGTTGATCCCTCAAGCAAGGTGTCACTGAATCGAAATACCGTGAATCG
66 GAACTCTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCG
4332674 AGTGAT
131 AGTGAT
* *
4332680 AAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * *
4332745 GAACTCTCCATTAGAAATGTTG
66 GAACTCTTCACTGGAAATGTTG
4332767 GTTCACCTCC
Statistics
Matches: 328, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
135 1 0.00
136 327 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (136 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCG
AGTGAT
Found at i:4333653 original size:8 final size:8
Alignment explanation
Indices: 4333642--4333699 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
4333632 CCTTTTTCTC
4333642 TTTTCATT
1 TTTTCATT
4333650 TTTTCA--
1 TTTTCATT
4333656 -TTTCATT
1 TTTTCATT
4333663 TTTTCATT
1 TTTTCATT
4333671 TTTTCATCT
1 TTTTCAT-T
4333680 TTTT-ATT
1 TTTTCATT
* *
4333687 TGTTCCTT
1 TTTTCATT
4333695 TTTTC
1 TTTTC
4333700 TTCAAGCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
5 5 0.12
7 4 0.10
8 28 0.67
9 5 0.12
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTCATT
Found at i:4333659 original size:13 final size:13
Alignment explanation
Indices: 4333643--4333671 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4333633 CTTTTTCTCT
4333643 TTTCATTTTTTCA
1 TTTCATTTTTTCA
4333656 TTTCATTTTTTCA
1 TTTCATTTTTTCA
4333669 TTT
1 TTT
4333672 TTTCATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCATTTTTTCA
Found at i:4345156 original size:32 final size:26
Alignment explanation
Indices: 4345093--4345159 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
4345083 GTTCAAGCCT
*
4345093 TTTCGAGTTTAAGTTTCAATATTATA
1 TTTCGAGTTCAAGTTTCAATATTATA
4345119 TTTCGAGTTCAAGTTTCAATATTATA
1 TTTCGAGTTCAAGTTTCAATATTATA
* *
4345145 CTTCGAGTTCGAGTT
1 TTTCGAGTTCAAGTT
4345160 GAACTTGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (26 bp):
TTTCGAGTTCAAGTTTCAATATTATA
Found at i:4347059 original size:24 final size:24
Alignment explanation
Indices: 4347030--4347083 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4347020 TTATTATTAT
*
4347030 TAATAACAA-CAACAATACTTATAA
1 TAATAACAATCAA-AATAATTATAA
* *
4347054 TAATAATAATCAAGATAATTATAA
1 TAATAACAATCAAAATAATTATAA
4347078 TAATAA
1 TAATAA
4347084 ATATAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
TAATAACAATCAAAATAATTATAA
Found at i:4347089 original size:18 final size:18
Alignment explanation
Indices: 4347049--4347090 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4347039 CAACAATACT
*
4347049 TATAATAATAATAATCAA
1 TATAATAATAATAATAAA
* *
4347067 GATAATTATAATAATAAA
1 TATAATAATAATAATAAA
4347085 TATAAT
1 TATAAT
4347091 GTTTTTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TATAATAATAATAATAAA
Found at i:4347557 original size:42 final size:42
Alignment explanation
Indices: 4347434--4347616 Score: 195
Period size: 42 Copynumber: 4.3 Consensus size: 42
4347424 TGTTTTTGTT
* *
4347434 CACAAATGCCGCTAATTATCCTGTCTTTAGTGGCATTTTTTC
1 CACAAACGCCGCTAATTATCTTGTCTTTAGTGGCATTTTTTC
** * * * *
4347476 CATGAACACTGCTAAATATCTTGTCATTAGTGGCATTTTTTGC
1 CACAAACGCCGCTAATTATCTTGTCTTTAGTGGCATTTTTT-C
* * * * *
4347519 CACAAATGCCGTTAATTCTCTTGTCTTTAGTGGCTTTTTTTT
1 CACAAACGCCGCTAATTATCTTGTCTTTAGTGGCATTTTTTC
* * * * *
4347561 TACATACGCCGCTAATTCTCTTGACTTTAGTGGCATTTTTAC
1 CACAAACGCCGCTAATTATCTTGTCTTTAGTGGCATTTTTTC
4347603 CACAAACGCCGCTA
1 CACAAACGCCGCTA
4347617 TTTACAAAAG
Statistics
Matches: 111, Mismatches: 29, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
42 79 0.71
43 32 0.29
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (42 bp):
CACAAACGCCGCTAATTATCTTGTCTTTAGTGGCATTTTTTC
Found at i:4347575 original size:85 final size:83
Alignment explanation
Indices: 4347434--4347616 Score: 206
Period size: 85 Copynumber: 2.2 Consensus size: 83
4347424 TGTTTTTGTT
* *
4347434 CACAAATGCCGCTAATTATCCTGTCTTTAGTGGCATTTTTTCCATGAACACTGCTAAATATCTTG
1 CACAAATGCCGCTAATTATCCTGTCTTTAGTGGCATTTTTTACAT-AACACCGCTAAATATCTTG
* *
4347499 TCATTAGTGGCATTTTTTGC
65 ACATTAGTGGCA-TTTTTAC
* * * * * * *
4347519 CACAAATGCCGTTAATTCTCTTGTCTTTAGTGGCTTTTTTTTTACAT-ACGCCGCTAATTCTCTT
1 CACAAATGCCGCTAATTATCCTGTCTTTAGTGGC--ATTTTTTACATAACACCGCTAAATATCTT
*
4347583 GACTTTAGTGGCATTTTTAC
64 GACATTAGTGGCATTTTTAC
*
4347603 CACAAACGCCGCTA
1 CACAAATGCCGCTA
4347617 TTTACAAAAG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
84 18 0.22
85 55 0.67
87 9 0.11
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (83 bp):
CACAAATGCCGCTAATTATCCTGTCTTTAGTGGCATTTTTTACATAACACCGCTAAATATCTTGA
CATTAGTGGCATTTTTAC
Found at i:4348234 original size:17 final size:17
Alignment explanation
Indices: 4348212--4348245 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4348202 CAGGGGATGA
4348212 ATTCATTGCACCAACCT
1 ATTCATTGCACCAACCT
4348229 ATTCATTGCACCAACCT
1 ATTCATTGCACCAACCT
4348246 GCCAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTCATTGCACCAACCT
Found at i:4349997 original size:121 final size:121
Alignment explanation
Indices: 4349773--4349999 Score: 357
Period size: 121 Copynumber: 1.9 Consensus size: 121
4349763 AACAAAAAAA
* * *
4349773 GGGGAGATGGAGAAGGGAACTGAATTCCGTATTAACTCGCTGTTCATTGCAATCACGAGTTCTTG
1 GGGGAGACGGAGAAGGGAACTGAATTCCGTATTAACTCACTGTTCATTGCAATCACGAATTCTTG
* * *
4349838 TAGCTCAGCGATTCGGGTGTTAAACGAATATATCAGATAATCGAGAGTTGAACCAG
66 TAGCTCAGCGATTCCGGTGTTAAACGAAGATATAAGATAATCGAGAGTTGAACCAG
* * *
4349894 GGGGAGACGGAGAATGGAACTGAATTCCG-AGTTAACTCATTGTTCCTTGCAATCACGAATTCTT
1 GGGGAGACGGAGAAGGGAACTGAATTCCGTA-TTAACTCACTGTTCATTGCAATCACGAATTCTT
4349958 GTAGCTCAGCGATTCCGGTGTTAAACGAAGATATAAGATAAT
65 GTAGCTCAGCGATTCCGGTGTTAAACGAAGATATAAGATAAT
4350000 GAATAGAGAG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 1 0.01
121 95 0.99
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (121 bp):
GGGGAGACGGAGAAGGGAACTGAATTCCGTATTAACTCACTGTTCATTGCAATCACGAATTCTTG
TAGCTCAGCGATTCCGGTGTTAAACGAAGATATAAGATAATCGAGAGTTGAACCAG
Found at i:4350381 original size:41 final size:41
Alignment explanation
Indices: 4350184--4350381 Score: 129
Period size: 41 Copynumber: 4.8 Consensus size: 41
4350174 ATTGTGGTGC
* * * * * * *
4350184 TTGTAAAAAAACGCCACTGAAGTGCTACTCTTTTGCGGTAT
1 TTGTATAAAAATGCCACTAAAGTACTACTCTATTGCAGTGT
* ** *
4350225 ATGTAT-AAAATGCCACTAAAGTACTACTCTATTGTGGCGT
1 TTGTATAAAAATGCCACTAAAGTACTACTCTATTGCAGTGT
* * * *
4350265 TTGTATAAAAATGCTATTAAAGTACTACTCT-GT-CATGTTGC
1 TTGTATAAAAATGCCACTAAAGTACTACTCTATTGCA-G-TGT
* * *
4350306 TTGT-TGAGAAAACGCCAC-AATAGATA-AACCCTATTGCAGTGT
1 TTGTAT-A-AAAATGCCACTAA-AG-TACTACTCTATTGCAGTGT
*
4350348 TTGTATAAAAATGCCACTAAAGTACTATTCTATT
1 TTGTATAAAAATGCCACTAAAGTACTACTCTATT
4350382 TCGACGTTTG
Statistics
Matches: 117, Mismatches: 28, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
40 37 0.32
41 51 0.44
42 22 0.19
43 5 0.04
44 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (41 bp):
TTGTATAAAAATGCCACTAAAGTACTACTCTATTGCAGTGT
Found at i:4354023 original size:14 final size:15
Alignment explanation
Indices: 4353998--4354026 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4353988 AAAAATACAA
4353998 CAAATAAATAATCTT
1 CAAATAAATAATCTT
4354013 CAAAT-AATAATCTT
1 CAAATAAATAATCTT
4354027 ATCTATCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
CAAATAAATAATCTT
Found at i:4368298 original size:63 final size:63
Alignment explanation
Indices: 4368199--4368324 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
4368189 AGGAGATTAA
* *
4368199 CCACTGAAGATATCACTCAAGTTGTGAATGAGTATAGACTTGCTGCAAGGAATGCCATGGAAG
1 CCACTGAAGAGATCACTCAAGCTGTGAATGAGTATAGACTTGCTGCAAGGAATGCCATGGAAG
*
4368262 CCACTGAAGAGATCCCTCAAGCTGTGAATGAGTATAGACTTGCTGCAAGGAATGCCATGGAAG
1 CCACTGAAGAGATCACTCAAGCTGTGAATGAGTATAGACTTGCTGCAAGGAATGCCATGGAAG
4368325 TTGGCAAGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (63 bp):
CCACTGAAGAGATCACTCAAGCTGTGAATGAGTATAGACTTGCTGCAAGGAATGCCATGGAAG
Found at i:4377495 original size:14 final size:14
Alignment explanation
Indices: 4377473--4377529 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
4377463 GGTTCGTGAA
*
4377473 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
4377487 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
4377501 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
4377511 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
4377525 CGTTT
1 CGTTT
4377530 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:4377501 original size:24 final size:24
Alignment explanation
Indices: 4377474--4377548 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
4377464 GTTCGTGAAC
* * *
4377474 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
4377498 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
4377522 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
4377546 GTT
1 GTT
4377549 TAACCCAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:4378320 original size:26 final size:26
Alignment explanation
Indices: 4378272--4378322 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4378262 GTCTCCAACG
*
4378272 TTTATGTTCGTTTATGTTAATGTTCA
1 TTTATGTTCGTTTACGTTAATGTTCA
*
4378298 TTTATGTTCGTGTT-CGTTTATGTTC
1 TTTATGTTCGT-TTACGTTAATGTTC
4378323 GTGTTCGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.59
Consensus pattern (26 bp):
TTTATGTTCGTTTACGTTAATGTTCA
Found at i:4378339 original size:16 final size:16
Alignment explanation
Indices: 4378276--4378340 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
4378266 CCAACGTTTA
**
4378276 TGTTCGTTTATGTTAA
1 TGTTCGTTTATGTTCG
*
4378292 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
4378308 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4378324 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4378340 T
1 T
4378341 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:4378431 original size:16 final size:16
Alignment explanation
Indices: 4378410--4378442 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4378400 AAAAAAATTT
4378410 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4378426 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4378442 T
1 T
4378443 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:4379181 original size:23 final size:23
Alignment explanation
Indices: 4379146--4379193 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
4379136 ATAAAGTACA
* *
4379146 ATAATATACTAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
4379169 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
4379192 AT
1 AT
4379194 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:4379705 original size:23 final size:23
Alignment explanation
Indices: 4379669--4379741 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
4379659 ATACTTTACA
* *
4379669 ATATAAGCACTACTTATTACATT
1 ATATAAACGCTACTTATTACATT
*
4379692 ATATAAACGTTACTTATTACATT
1 ATATAAACGCTACTTATTACATT
* *
4379715 ATATAAACGCTACCTATTACATC
1 ATATAAACGCTACTTATTACATT
4379738 ATAT
1 ATAT
4379742 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAACGCTACTTATTACATT
Found at i:4379965 original size:490 final size:490
Alignment explanation
Indices: 4379267--4380440 Score: 2161
Period size: 490 Copynumber: 2.4 Consensus size: 490
4379257 TTATAATATG
*
4379267 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
4379331 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
4379396 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
4379461 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
4379526 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
4379591 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* * *
4379656 TAGATACTTTACAATATAAGCACTACTTATTACATTATATAAACGTTACTTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
4379721 ACGCTACCTATTACATCATATTTTTACCTATTATA
456 ACGCTACCTATTACATCATATTTTTACCTATTATA
* *
4379756 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
4379821 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTATA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
4379886 CAAAATATTATTTGATTGTTTTGGTATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
4379951 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
4380016 ATCGTAACGTAAAAAATAAATCATTAGACGCTTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
4380081 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
4380146 TAGATACTTTATAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
*
4380211 GCGCTACCTATTACATCATATTTTTACCTATTATA
456 ACGCTACCTATTACATCATATTTTTACCTATTATA
4380246 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
4380311 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* * *
4380376 CAAAAAATTATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAATA
4380441 ATATATATCG
Statistics
Matches: 659, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
489 15 0.02
490 630 0.96
491 14 0.02
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (490 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
ACGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:4380186 original size:23 final size:23
Alignment explanation
Indices: 4380159--4380231 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
4380149 ATACTTTATA
*
4380159 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
4380182 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
4380205 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
4380228 ATAT
1 ATAT
4380232 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:4380626 original size:23 final size:23
Alignment explanation
Indices: 4380600--4380662 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4380590 ATATAACCAC
4380600 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
4380623 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4380646 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4380663 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4380866 original size:431 final size:431
Alignment explanation
Indices: 4379993--4380871 Score: 1600
Period size: 431 Copynumber: 2.0 Consensus size: 431
4379983 ATGTTTATTG
* *
4379993 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCTTATAATTACT
1 TTTTAAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
4380058 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAG
* * * * *
4380123 TATGGACACTTTTATAAAAAGGATAGATACTTTATAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAAATAATTTACAATATAACCACTACCTATTACATTATATAA
*
4380188 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
4380253 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
4380318 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
4380383 TTATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAA
391 TTATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAA
*
4380424 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTAAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4380489 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAG
4380554 TATAGACACTTTTATAAAAAGGATAAATAATTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAAATAATTTACAATATAACCACTACCTATTACATTATATAA
4380619 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
4380684 TGTCCATACTTTTTATAAAAAAAGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAAT
261 TGTCCATACTTTTTAT-AAAAAAGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAAT
4380748 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
324 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
*
4380813 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
389 AATTATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAA
*
4380856 -TTTAAATTTAACAATA
1 TTTTAAATTTAATAATA
4380872 TTAACCAAAG
Statistics
Matches: 433, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
431 283 0.65
432 150 0.35
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (431 bp):
TTTTAAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAAATAATTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAA
Found at i:4381038 original size:25 final size:25
Alignment explanation
Indices: 4381010--4381074 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
4381000 ACTCAAAAGA
*
4381010 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
4381035 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
4381060 TGTACATACCTAAAT
1 TGTACATACCTAAAT
4381075 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:4383845 original size:183 final size:183
Alignment explanation
Indices: 4383536--4384292 Score: 1322
Period size: 183 Copynumber: 4.1 Consensus size: 183
4383526 TACTTAAAAT
4383536 TACCGACACAATATTA-AAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTA
1 TACCGACACAATATTAGAAA-GTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTA
*
4383600 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCTGATGTGTAAAT
64 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAAT
4383665 GTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
129 GTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
4383720 TACCGACACAATATTAGAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
4383785 TTTATACCGATTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
4383850 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
4383903 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
4383968 TTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
4384033 CGACA-TTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATTTGGACATAAAG
131 CGACACTTTTTT-A-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
4384086 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGTTCATAAAACCGATATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
4384151 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
* *
4384216 CGACACTTTTTTAAATGGTATCGACATATTTTTCTTCCATTCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
4384269 TACAGACACAATATTAAAAAGTGT
1 TACCGACACAATATTAGAAAGTGT
4384293 GAAAACTTTG
Statistics
Matches: 548, Mismatches: 20, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
182 9 0.02
183 495 0.90
184 41 0.07
185 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:4385502 original size:3 final size:3
Alignment explanation
Indices: 4385494--4385553 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
4385484 ACTTGTTTGG
* * * * *
4385494 ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
4385542 GTC GTC ATC ATC
1 ATC ATC ATC ATC
4385554 TTCAGCTTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:4385569 original size:12 final size:12
Alignment explanation
Indices: 4385523--4385565 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4385513 TCGTCATCAT
4385523 CTTCATCGTCAG
1 CTTCATCGTCAG
4385535 CTTCATCGTC-G
1 CTTCATCGTCAG
* *
4385546 TCATCATCTTCAG
1 -CTTCATCGTCAG
4385559 CTTCATC
1 CTTCATC
4385566 TTCATTGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.16, C:0.35, G:0.12, T:0.37
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:4385569 original size:30 final size:30
Alignment explanation
Indices: 4385501--4385570 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
4385491 TGGATCATCA
* *
4385501 TCATCATCATCATCGTCATCATCTTCATCG
1 TCATCTTCATCATCGTCATCATCTTCAGCG
* * *
4385531 TCAGCTTCATCGTCGTCATCATCTTCAGCT
1 TCATCTTCATCATCGTCATCATCTTCAGCG
4385561 TCATCTTCAT
1 TCATCTTCAT
4385571 TGACCGCTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.39
Consensus pattern (30 bp):
TCATCTTCATCATCGTCATCATCTTCAGCG
Found at i:4387384 original size:200 final size:200
Alignment explanation
Indices: 4387034--4388208 Score: 2228
Period size: 200 Copynumber: 5.9 Consensus size: 200
4387024 TTTAAATTAG
*
4387034 TATCGATACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
4387099 CTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTAGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387164 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
4387229 AAAAA
196 AAAAA
4387234 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4387299 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
4387364 TTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
4387429 AAAAA
196 AAAAA
4387434 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4387499 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387564 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
4387627 AAAAA
196 AAAAA
*
4387632 TATCGACACACACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4387697 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387762 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
4387827 AAAAA
196 AAAAA
4387832 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4387897 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387962 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
4388027 AAAAA
196 AAAAA
* * *
4388032 TATCGACATAAACTAAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4388097 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTAGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
4388162 TCGACACTTTTTATATATGGTTCGACACTTTATTGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
4388209 GGCCATATTG
Statistics
Matches: 959, Mismatches: 14, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
198 193 0.20
199 8 0.01
200 758 0.79
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
AAAAA
Found at i:4387779 original size:398 final size:400
Alignment explanation
Indices: 4387034--4388208 Score: 2228
Period size: 398 Copynumber: 2.9 Consensus size: 400
4387024 TTTAAATTAG
*
4387034 TATCGATACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
4387099 CTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTAGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387164 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
4387229 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
4387294 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
*
4387359 TGGGATTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTAT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTAT
4387424 GGACCAAAAA
391 GGACCAAAAA
4387434 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4387499 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387564 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
*
4387627 AAAAATATCGACACACACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
4387692 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
4387757 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTAT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTAT
4387822 GGACCAAAAA
391 GGACCAAAAA
4387832 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4387897 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4387962 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
* * *
4388027 AAAAATATCGACATAAACTAAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCA
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
4388092 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTAGATGTTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
* *
4388157 TGGGATCGACACTTTTTATATATGGTTCGACACTTTATTGTTGCACCCTGTT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
4388209 GGCCATATTG
Statistics
Matches: 760, Mismatches: 13, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
398 392 0.52
399 8 0.01
400 360 0.47
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (400 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTAT
GGACCAAAAA
Found at i:4388338 original size:18 final size:18
Alignment explanation
Indices: 4388315--4388375 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
4388305 TCTCATTCAT
*
4388315 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
4388333 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
4388352 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
4388371 AATTA
1 AATTA
4388376 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:4388351 original size:19 final size:19
Alignment explanation
Indices: 4388327--4388375 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4388317 TTATATTCAC
4388327 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
4388346 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
4388365 ATACAAAATTA
1 ATACAAAATTA
4388376 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:4390205 original size:33 final size:33
Alignment explanation
Indices: 4390167--4390232 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4390157 CATCTTAATA
*
4390167 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
4390200 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
4390233 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Done.