Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004284.1 Hibiscus syriacus cultivar Beakdansim tig00009392_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: 204375
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1040 original size:6 final size:6
Alignment explanation
Indices: 1023--1052 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1013 CAACAATTAG
1023 TTAAAA -TAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
1053 GTAATGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:2848 original size:61 final size:61
Alignment explanation
Indices: 2776--2899 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
2766 CGGGTGACCA
* ** *
2776 TTTTATAAATTTTAATAGTTGAGGGACTCAACAAAACAACTCCTTATAGTCAAAGGACGAT
1 TTTTATAAATTTTAATAGTCGAAAGACTCAACAAAACAACTCCTTATAGTCAAAAGACGAT
*
2837 TTTTATAAATTTTAATAGTCGAAAGACTTAACAAAACAACTCCTTATAGTCAAAAGACGAT
1 TTTTATAAATTTTAATAGTCGAAAGACTCAACAAAACAACTCCTTATAGTCAAAAGACGAT
2898 TT
1 TT
2900 GTAACTTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (61 bp):
TTTTATAAATTTTAATAGTCGAAAGACTCAACAAAACAACTCCTTATAGTCAAAAGACGAT
Found at i:5041 original size:29 final size:27
Alignment explanation
Indices: 5009--5069 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
4999 ATCAAACAAT
* *
5009 AACACCTTCAAAATAAGCAAATGAACATG
1 AACACCATCAAAATAAACAAAT-AA-ATG
* *
5038 AACATCATCAAAATAAATAAATAAATG
1 AACACCATCAAAATAAACAAATAAATG
5065 AACAC
1 AACAC
5070 GAACACAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 7 0.26
28 2 0.07
29 18 0.67
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (27 bp):
AACACCATCAAAATAAACAAATAAATG
Found at i:5571 original size:29 final size:25
Alignment explanation
Indices: 5506--5560 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
5496 ATATGAACAT
5506 GAACACAT-AAAAAAATAAACAAAC
1 GAACACATAAAAAAAATAAACAAAC
5530 GAACACATAAAAAAAATAAACAAAC
1 GAACACATAAAAAAAATAAACAAAC
5555 GAACAC
1 GAACAC
5561 GATATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.69, C:0.18, G:0.05, T:0.07
Consensus pattern (25 bp):
GAACACATAAAAAAAATAAACAAAC
Found at i:11386 original size:11 final size:11
Alignment explanation
Indices: 11370--11401 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
11360 ATATATCACT
11370 TGAACAAAAAC
1 TGAACAAAAAC
11381 TGAACAAAAAC
1 TGAACAAAAAC
11392 TGAACAAAAA
1 TGAACAAAAA
11402 GGCTGCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.16, G:0.09, T:0.09
Consensus pattern (11 bp):
TGAACAAAAAC
Found at i:17274 original size:26 final size:26
Alignment explanation
Indices: 17222--17273 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17212 ATACACATAT
***
17222 ATGTTGAAGGTACTTGCTCTTGCAAA
1 ATGTTGAAGGTACTTGCTCAACCAAA
17248 ATGTTGAAGGTACTTGC-CAACCAAA
1 ATGTTGAAGGTACTTGCTCAACCAAA
17273 A
1 A
17274 ACAACAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (26 bp):
ATGTTGAAGGTACTTGCTCAACCAAA
Found at i:20643 original size:2 final size:2
Alignment explanation
Indices: 20636--20662 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20626 AAATGATCAT
20636 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
20663 CACAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30371 original size:17 final size:17
Alignment explanation
Indices: 30349--30386 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
30339 TATTGTCTTT
30349 GTGGTTGCCACCAAAAG
1 GTGGTTGCCACCAAAAG
30366 GTGGTTGCCACCAAAAG
1 GTGGTTGCCACCAAAAG
30383 GTGG
1 GTGG
30387 ATCCTCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.18
Consensus pattern (17 bp):
GTGGTTGCCACCAAAAG
Found at i:32088 original size:580 final size:580
Alignment explanation
Indices: 30988--32147 Score: 2284
Period size: 580 Copynumber: 2.0 Consensus size: 580
30978 TATATGATTG
30988 TTCCAATCAAATCTTCAAGTGGGAGATTGTTGAAAAATCAAAAACCACATGGGCTGCTAGTTAGC
1 TTCCAATCAAATCTTCAAGTGGGAGATTGTTGAAAAATCAAAAACCACATGGGCTGCTAGTTAGC
31053 AGCCGGTGGCTTTGAAAAAAAATATTAAAAGCCAATTTTGTTGATTTTTTATATGGTCAAATTAC
66 AGCCGGTGGCTTTGAAAAAAAATATTAAAAGCCAATTTTGTTGATTTTTTATATGGTCAAATTAC
*
31118 AAATTTTAGTCATTAAACTTTAGGGTATTTACAAGATTAAGTCCTTAAGATTTAGCTATAAATAC
131 AAACTTTAGTCATTAAACTTTAGGGTATTTACAAGATTAAGTCCTTAAGATTTAGCTATAAATAC
31183 CCTATCCCATTTAACTTCAAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAGAAT
196 CCTATCCCATTTAACTTCAAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAGAAT
*
31248 TTAGAGAGTTTCTTGAGAGTTGTTTTCTCCTATTTATCAAGAGAGAATTATTGTTTTCTCCTTGG
261 TTAGAGAGTTTCTTGAGAGTTATTTTCTCCTATTTATCAAGAGAGAATTATTGTTTTCTCCTTGG
*
31313 TAAATCGAGAGAAGTTGTAATTCCTATTTTCTCATTGTGAAATTATTCTACCGTTGTACATAGAG
326 TAAATCGAGAGAAGTTGTAATTCCTATTTTCTCATAGTGAAATTATTCTACCGTTGTACATAGAG
*
31378 CAAAATCGCAACTCTACCATCCCCGGTGTTCCAATAAGTTTTAAGCTCTGCAAACCCTGTCGCCA
391 CAAAATCGCAACTCTACCATCCCCGGAGTTCCAATAAGTTTTAAGCTCTGCAAACCCTGTCGCCA
31443 TCCTGAACTTCCCTCTTCCTCCGACGACCGCCAGCTCTCGATGCGTCTCCATAATCGGATTCCTC
456 TCCTGAACTTCCCTCTTCCTCCGACGACCGCCAGCTCTCGATGCGTCTCCATAATCGGATTCCTC
31508 TAGAATACGCTGAACGAGCTACCGTTGAATTCGCCCCGAGTAAACCCGAAATCTAAGTAC
521 TAGAATACGCTGAACGAGCTACCGTTGAATTCGCCCCGAGTAAACCCGAAATCTAAGTAC
31568 TTCCAATCAAATCTTCAAGTGGGAGATTGTTGAAAAATCAAAAACCACATGGGCTGCTAGTTAGC
1 TTCCAATCAAATCTTCAAGTGGGAGATTGTTGAAAAATCAAAAACCACATGGGCTGCTAGTTAGC
31633 AGCCGGTGGCTTTGAAAAAAAATATTAAAAGCCAATTTTGTTGATTTTTTATATGGTCAAATTAC
66 AGCCGGTGGCTTTGAAAAAAAATATTAAAAGCCAATTTTGTTGATTTTTTATATGGTCAAATTAC
31698 AAACTTTAGTCATTAAACTTTAGGGTATTTACAAGATTAAGTCCTTAAGATTTAGCTATAAATAC
131 AAACTTTAGTCATTAAACTTTAGGGTATTTACAAGATTAAGTCCTTAAGATTTAGCTATAAATAC
31763 CCTATCCCATTTAACTTCAAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAGAAT
196 CCTATCCCATTTAACTTCAAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAGAAT
31828 TTAGAGAGTTTCTTGAGAGTTATTTTCTCCTATTTATCAAGAGAGAATTATTGTTTTCTCCTTGG
261 TTAGAGAGTTTCTTGAGAGTTATTTTCTCCTATTTATCAAGAGAGAATTATTGTTTTCTCCTTGG
31893 TAAATCGAGAGAAGTTGTAATTCCTATTTTCTCATAGTGAAATTATTCTACCGTTGTACATAGAG
326 TAAATCGAGAGAAGTTGTAATTCCTATTTTCTCATAGTGAAATTATTCTACCGTTGTACATAGAG
31958 CAAAATCGCAACTCTACCATCCCCGGAGTTCCAATAAGTTTTAAGCTCTGCAAACCCTGTCGCCA
391 CAAAATCGCAACTCTACCATCCCCGGAGTTCCAATAAGTTTTAAGCTCTGCAAACCCTGTCGCCA
32023 TCCTGAACTTCCCTCTTCCTCCGACGACCGCCAGCTCTCGATGCGTCTCCATAATCGGATTCCTC
456 TCCTGAACTTCCCTCTTCCTCCGACGACCGCCAGCTCTCGATGCGTCTCCATAATCGGATTCCTC
32088 TAGAATACGCTGAACGAGCTACCGTTGAATTCGCCCCGAGTAAACCCGAAATCTAAGTAC
521 TAGAATACGCTGAACGAGCTACCGTTGAATTCGCCCCGAGTAAACCCGAAATCTAAGTAC
32148 ACAACCAGAG
Statistics
Matches: 576, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
580 576 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (580 bp):
TTCCAATCAAATCTTCAAGTGGGAGATTGTTGAAAAATCAAAAACCACATGGGCTGCTAGTTAGC
AGCCGGTGGCTTTGAAAAAAAATATTAAAAGCCAATTTTGTTGATTTTTTATATGGTCAAATTAC
AAACTTTAGTCATTAAACTTTAGGGTATTTACAAGATTAAGTCCTTAAGATTTAGCTATAAATAC
CCTATCCCATTTAACTTCAAAACCATCCCAAAGCATTCTAGCTTTCTTCCAATACTAGAGAGAAT
TTAGAGAGTTTCTTGAGAGTTATTTTCTCCTATTTATCAAGAGAGAATTATTGTTTTCTCCTTGG
TAAATCGAGAGAAGTTGTAATTCCTATTTTCTCATAGTGAAATTATTCTACCGTTGTACATAGAG
CAAAATCGCAACTCTACCATCCCCGGAGTTCCAATAAGTTTTAAGCTCTGCAAACCCTGTCGCCA
TCCTGAACTTCCCTCTTCCTCCGACGACCGCCAGCTCTCGATGCGTCTCCATAATCGGATTCCTC
TAGAATACGCTGAACGAGCTACCGTTGAATTCGCCCCGAGTAAACCCGAAATCTAAGTAC
Found at i:32831 original size:22 final size:22
Alignment explanation
Indices: 32803--32853 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
32793 TGATTTATTA
32803 ATAAAAT-AACAATAAACAGA-AT
1 ATAAAATGAA-AATAAA-AGATAT
*
32825 ATAAAATGAAAATAAAATATAT
1 ATAAAATGAAAATAAAAGATAT
32847 ATAAAAT
1 ATAAAAT
32854 TAAAGTGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (22 bp):
ATAAAATGAAAATAAAAGATAT
Found at i:45269 original size:36 final size:36
Alignment explanation
Indices: 45170--45456 Score: 350
Period size: 36 Copynumber: 8.1 Consensus size: 36
45160 TTCGTTCTAG
* * *
45170 TTGAATCGGAAGTG-CAATGCTTCTTTCCGTTCAAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * * *
45205 TTGAATCGGAAGTG-TGATGCTTCTTTCCGTTTGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
*
45240 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * *
45276 TTGAATCGGAAGTGCTGATGCTTCCTTCCATTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* *
45312 TTGAATCGGAAGTGCCGATGCTTTCTTCCGTTCAAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * *
45348 TTGAATCGGAAGTGTCGATTCCTT-CTTCCATTCGAC
1 TTGAATCGGAAGTGCCGA-TGCTTCCTTCCGTTCGAC
*
45384 TTGAATCGGAAGTGTCGATGCCTT-CTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATG-CTTCCTTCCGTTCGAC
* *
45420 TTGAATCGGAAGTGCCGATCCTTCCTTCTGTTC-AC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
45455 TT
1 TT
45457 CCATTCTGTC
Statistics
Matches: 224, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
35 52 0.23
36 168 0.75
37 4 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (36 bp):
TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
Found at i:47296 original size:36 final size:35
Alignment explanation
Indices: 47197--47519 Score: 373
Period size: 36 Copynumber: 9.1 Consensus size: 35
47187 TTCGTTCTAG
* * *
47197 TTGAATCGGAAGTGCAATGCTTCTTTCCGTTCAAC
1 TTGAATCGGAAGTGCGATGCTTCCTTCCGTTCGAC
* * * *
47232 TTGAATCGAAAGTGTGATGCTTCTTTCCGTTCGAT
1 TTGAATCGGAAGTGCGATGCTTCCTTCCGTTCGAC
* *
47267 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTAGAT
1 TTGAATCGGAAGTG-CGATGCTTCCTTCCGTTCGAC
*
47303 TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGC-GATGCTTCCTTCCGTTCGAC
*
47339 TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGC-GATGCTTCCTTCCGTTCGAC
*
47375 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCAAC
1 TTGAATCGGAAGTG-CGATGCTTCCTTCCGTTCGAC
** *
47411 TTGAATCGGAAGTGTCGATGCCTT-CTTCTATTCAAC
1 TTGAATCGGAAGTG-CGATG-CTTCCTTCCGTTCGAC
* *
47447 TTGAATCGAAAGTGCCGATGCCTT-CTTTCGTTCGAC
1 TTGAATCGGAAGTG-CGATG-CTTCCTTCCGTTCGAC
* *
47483 TTGAATCGAAAGTGCCGATCCTTCCTTCCGTTC-AC
1 TTGAATCGGAAGTG-CGATGCTTCCTTCCGTTCGAC
47518 TT
1 TT
47520 CCATTCTGTC
Statistics
Matches: 260, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
35 51 0.20
36 205 0.79
37 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (35 bp):
TTGAATCGGAAGTGCGATGCTTCCTTCCGTTCGAC
Found at i:47384 original size:108 final size:108
Alignment explanation
Indices: 47197--47516 Score: 427
Period size: 108 Copynumber: 3.0 Consensus size: 108
47187 TTCGTTCTAG
* * *
47197 TTGAATCGGAAGTGC-AATGCTTCTTTCCGTTCAACTTGAATCGAAAGTG-TGATGCTTCTTTCC
1 TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCAACTTGAATCGAAAGTGCTGATGCTTCCTTCC
* *
47260 GTTCGATTTGAATCGGAAGTGTCGATGCTTCCTTCCGTT-AGAT
66 GTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCA-AC
* * *
47303 TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTGCTGATGCTTCCTTCC
1 TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCAACTTGAATCGAAAGTGCTGATGCTTCCTTCC
47368 GTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCAAC
66 GTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCAAC
** *
47411 TTGAATCGGAAGTG-TCGATGCCTT-CTTCTATTCAACTTGAATCGAAAGTGCCGATGCCTT-CT
1 TTGAATCGGAAGTGCT-GATG-CTTCCTTCCGTTCAACTTGAATCGAAAGTGCTGATG-CTTCCT
* * * *
47473 TTCGTTCGACTTGAATCGAAAGTGCCGATCCTTCCTTCCGTTCA
63 TCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCA
47517 CTTCCATTCT
Statistics
Matches: 190, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
106 15 0.08
107 30 0.16
108 138 0.73
109 7 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (108 bp):
TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCAACTTGAATCGAAAGTGCTGATGCTTCCTTCC
GTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCAAC
Found at i:48898 original size:16 final size:15
Alignment explanation
Indices: 48877--48910 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
48867 GATCTTTGGC
48877 GAATGATACCATGTGA
1 GAATGATACCATG-GA
*
48893 GAATGATGCCATGGA
1 GAATGATACCATGGA
48908 GAA
1 GAA
48911 AAAGCTACAA
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:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (15 bp):
GAATGATACCATGGA
Found at i:49521 original size:674 final size:674
Alignment explanation
Indices: 48233--49584 Score: 2506
Period size: 674 Copynumber: 2.0 Consensus size: 674
48223 TTTTTCTCAA
* *
48233 AGAAAAAGCTACAATCATTCTCGGTTTCATAAACATGGTGAGACATTTGAATTTCTGATCGAGAT
1 AGAAAAAGCTACAATCATTCTCGGCTTCATAAACATGGTGAGACATATGAATTTCTGATCGAGAT
* *
48298 GGACCTAGAGGGCCAAAACCGTGTGAAGCGACACGAACACTAAAAGGGAAAACTGTCGGGGATGT
66 GGACCTAGAGGGCCAAAACCGTGTGAAGCGACACGAACACCAAAAGGGAAAACTGTCGGAGATGT
48363 AACTGCTCCAAATTGTATTTTCTCCAAGTTGCAATCTCAACGAAAACAATGAAAAACAAATATGT
131 AACTGCTCCAAATTGTATTTTCTCCAAGTTGCAATCTCAACGAAAACAATGAAAAACAAATATGT
* *
48428 TTTCTGCAGAATCTGATCAGTTGTCACAATTTCATCGAGTGAGTTTTGTGAGATCTGATAAAACA
196 TTTCTGCAAAATCTGATCAGTTGTCACAATTTCATCGAGTGAGTTTTGTGAGATCTGAGAAAACA
48493 AGGCATGCTGAGAAGAAATCCCCTGTGAGAACGATTGTTGTGATGGTTGTGATCTAAGTTGTGAT
261 AGGCATGCTGAGAAGAAATCCCCTGTGAGAACGATTGTTGTGATGGTTGTGATCTAAGTTGTGAT
* *
48558 GATTGCGGTACACTCGGCGGCAGGCTTGATCTCCTTGTATGAGGAGGAAAAACATAGATGGAGCC
326 GATTGCGGTACACTCGGCGGCAGGCTTGATCTCCTTGTATGAGGAGGAAAAACAGAGATAGAGCC
48623 AAGATCACAAGCTTTGCTGATCTTCAACTTCATTTATTCCAGAATCAATTAAATCAAGTGAAAAA
391 AAGATCACAAGCTTTGCTGATCTTCAACTTCATTTATTCCAGAATCAATTAAATCAAGTGAAAAA
48688 GTAGAGTTCTCAATAGCAACAGGTTTTTAGAATACGCGAATCAACCTCTCTTTCCAAGTGAGAAA
456 GTAGAGTTCTCAATAGCAACAGGTTTTTAGAATACGCGAATCAACCTCTCTTTCCAAGTGAGAAA
*
48753 GGAAGAACGATCTGAGAAAAATAAGAGGACGAGGTGAGAGTTTTGGAGAAGAAAGAAAGTGAGAG
521 GGAAGAACGATCGGAGAAAAATAAGAGGACGAGGTGAGAGTTTTGGAGAAGAAAGAAAGTGAGAG
* * *
48818 TAAAGGAACTCAATCGTCGGCACAACTGTGGAAGAGAGAACGATGTCAGGATCTTTGGCGAATGA
586 TAAAGGAACTCAATCGTCGGCACAACTGTGGAACAGAAAACGATGTCAGGATCGTTGGCGAATGA
*
48883 TACCATGTGAGAATGATGCCATGG
651 TACCATATGAGAATGATGCCATGG
48907 AGAAAAAGCTACAATCATTCTCGGCTTCATAAACATGGTGAGACATATGAATTTCTGATCGAGAT
1 AGAAAAAGCTACAATCATTCTCGGCTTCATAAACATGGTGAGACATATGAATTTCTGATCGAGAT
* *
48972 GGACCTGGAGGGCCAAAACCGTGTGAAGCGACACGAACACCAGAAGGGAAAACTGTCGGAGATGT
66 GGACCTAGAGGGCCAAAACCGTGTGAAGCGACACGAACACCAAAAGGGAAAACTGTCGGAGATGT
* *
49037 AACTGCTCCAAATTGTATTTTCTCCAAGTTGCAATCTCAACGAAAACAGTGGAAAACAAATATGT
131 AACTGCTCCAAATTGTATTTTCTCCAAGTTGCAATCTCAACGAAAACAATGAAAAACAAATATGT
*
49102 TTTCTGCAAAATCTGATCAGTTGTCACGATTTCATCGAGTGAGTTTTGTGAGATCTGAGAAAACA
196 TTTCTGCAAAATCTGATCAGTTGTCACAATTTCATCGAGTGAGTTTTGTGAGATCTGAGAAAACA
49167 AGGCATGCTGAGAAGAAATCCCCTGTGAGAACGATTGTTGTGATGGTTGTGATCTAAGTTGTGAT
261 AGGCATGCTGAGAAGAAATCCCCTGTGAGAACGATTGTTGTGATGGTTGTGATCTAAGTTGTGAT
49232 GATTGCGGTACACTCGGCGGCAGGCTTGATCTCCTTGTATGAGGAGGAAAAACAGAGATAGAGCC
326 GATTGCGGTACACTCGGCGGCAGGCTTGATCTCCTTGTATGAGGAGGAAAAACAGAGATAGAGCC
*
49297 AAGATCACAAGCTTTGCTGATCTTCAACTTCATTTATTCCAGAATCGATTAAATCAAGTGAAAAA
391 AAGATCACAAGCTTTGCTGATCTTCAACTTCATTTATTCCAGAATCAATTAAATCAAGTGAAAAA
*
49362 TTAGAGTTCTCAATAGCAACAGGTTTTTAGAATACGCGAATCAACCTCTCTTTCCAAGTGAGAAA
456 GTAGAGTTCTCAATAGCAACAGGTTTTTAGAATACGCGAATCAACCTCTCTTTCCAAGTGAGAAA
* *
49427 GGGAGAACGATCGGAGAAAAATAAGAGGATGAGGTGAGAGTTTTGGAGAAGAAAGAAAGTGAGAG
521 GGAAGAACGATCGGAGAAAAATAAGAGGACGAGGTGAGAGTTTTGGAGAAGAAAGAAAGTGAGAG
49492 TAAAGGAACTCAATCGTCGGCACAACTGTGGAACAGAAAACGATGTCAGGATCGTTGGCGAATGA
586 TAAAGGAACTCAATCGTCGGCACAACTGTGGAACAGAAAACGATGTCAGGATCGTTGGCGAATGA
49557 TACCATATGAGAATGATGCCATGG
651 TACCATATGAGAATGATGCCATGG
49581 AGAA
1 AGAA
49585 GATGACAGAA
Statistics
Matches: 656, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
674 656 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (674 bp):
AGAAAAAGCTACAATCATTCTCGGCTTCATAAACATGGTGAGACATATGAATTTCTGATCGAGAT
GGACCTAGAGGGCCAAAACCGTGTGAAGCGACACGAACACCAAAAGGGAAAACTGTCGGAGATGT
AACTGCTCCAAATTGTATTTTCTCCAAGTTGCAATCTCAACGAAAACAATGAAAAACAAATATGT
TTTCTGCAAAATCTGATCAGTTGTCACAATTTCATCGAGTGAGTTTTGTGAGATCTGAGAAAACA
AGGCATGCTGAGAAGAAATCCCCTGTGAGAACGATTGTTGTGATGGTTGTGATCTAAGTTGTGAT
GATTGCGGTACACTCGGCGGCAGGCTTGATCTCCTTGTATGAGGAGGAAAAACAGAGATAGAGCC
AAGATCACAAGCTTTGCTGATCTTCAACTTCATTTATTCCAGAATCAATTAAATCAAGTGAAAAA
GTAGAGTTCTCAATAGCAACAGGTTTTTAGAATACGCGAATCAACCTCTCTTTCCAAGTGAGAAA
GGAAGAACGATCGGAGAAAAATAAGAGGACGAGGTGAGAGTTTTGGAGAAGAAAGAAAGTGAGAG
TAAAGGAACTCAATCGTCGGCACAACTGTGGAACAGAAAACGATGTCAGGATCGTTGGCGAATGA
TACCATATGAGAATGATGCCATGG
Found at i:51767 original size:18 final size:18
Alignment explanation
Indices: 51740--51788 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
51730 TTCGGAGAAG
*
51740 GGCAACGGTGGCA-TCGGA
1 GGCAATGGTGGCAGT-GGA
51758 GGCAATGGTGGCAGTGGA
1 GGCAATGGTGGCAGTGGA
*
51776 GGCAATCGTGGCA
1 GGCAATGGTGGCA
51789 AAGGCGGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.22, C:0.18, G:0.45, T:0.14
Consensus pattern (18 bp):
GGCAATGGTGGCAGTGGA
Found at i:53149 original size:2 final size:2
Alignment explanation
Indices: 53142--53181 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
53132 TGAATTATTG
53142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53182 GTCCACTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58858 original size:23 final size:23
Alignment explanation
Indices: 58832--58892 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
58822 AATTTGGTCC
58832 TTTT-ATTTTTTTAACTATTCATT
1 TTTTAATTTTTTTAACTATT-ATT
* *
58855 TTTTAATTTATTT-ATTATTATT
1 TTTTAATTTTTTTAACTATTATT
58877 TTTTAATCTTTTTTAA
1 TTTTAAT-TTTTTTAA
58893 TTTTTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.31
23 14 0.44
24 8 0.25
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTAATTTTTTTAACTATTATT
Found at i:58899 original size:24 final size:23
Alignment explanation
Indices: 58832--58899 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
58822 AATTTGGTCC
* *
58832 TTTT-ATTTTTTTAACTATTCATT
1 TTTTAATTTTTTTAA-TTTTTATT
* *
58855 TTTTAATTTATTT-ATTATTATT
1 TTTTAATTTTTTTAATTTTTATT
58877 TTTTAATCTTTTTTAATTTTTAT
1 TTTTAAT-TTTTTTAATTTTTAT
58900 ATATACATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 12 0.33
23 10 0.28
24 14 0.39
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTAATTTTTTTAATTTTTATT
Found at i:58949 original size:18 final size:17
Alignment explanation
Indices: 58926--59014 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 17
58916 TTTTGTTACG
58926 TTTTTTCTTTTATTTAT
1 TTTTTTCTTTTATTTAT
*
58943 TTATTTTCCTTTTTTCTTAT
1 TT-TTTT-CTTTTAT-TTAT
*
58963 TTTTTAT-TTATTCTTTAT
1 TTTTT-TCTT-TTATTTAT
*
58981 TTTTTACTTTTGATTTAT
1 TTTTTTCTTTT-ATTTAT
*
58999 TCTTTTATTTTTTATT
1 T-TTTT-TCTTTTATT
59015 CTTTTTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
17 4 0.07
18 23 0.40
19 19 0.33
20 11 0.19
ACGTcount: A:0.13, C:0.08, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTTTTCTTTTATTTAT
Found at i:58969 original size:7 final size:7
Alignment explanation
Indices: 58933--59026 Score: 52
Period size: 7 Copynumber: 12.4 Consensus size: 7
58923 ACGTTTTTTC
58933 TTTTATT
1 TTTTATT
58940 TATTTATT
1 T-TTTATT
58948 TTCCTT-TT
1 TT--TTATT
58956 TTCTTATT
1 TT-TTATT
58964 TTTTA--
1 TTTTATT
58969 -TTTATT
1 TTTTATT
*
58975 CTTTATT
1 TTTTATT
58982 TTTTACTTT
1 TTTTA--TT
58991 TGATTTATT
1 T--TTTATT
59000 CTTTTATT
1 -TTTTATT
59008 TTTTATTCT
1 TTTTA-T-T
59017 TTTTATT
1 TTTTATT
59024 TTT
1 TTT
59027 ACTTTTACAT
Statistics
Matches: 72, Mismatches: 1, Indels: 28
0.71 0.01 0.28
Matches are distributed among these distances:
4 4 0.06
7 27 0.38
8 23 0.32
9 13 0.18
10 1 0.01
11 4 0.06
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTTATT
Found at i:58997 original size:25 final size:26
Alignment explanation
Indices: 58954--59012 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
58944 TATTTTCCTT
* *
58954 TTTTCTTATTTTTTATTTATTC-TTTA
1 TTTT-TTACTTTTGATTTATTCTTTTA
58980 TTTTTTACTTTTGATTTATTCTTTTA
1 TTTTTTACTTTTGATTTATTCTTTTA
59006 TTTTTTA
1 TTTTTTA
59013 TTCTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTTTACTTTTGATTTATTCTTTTA
Found at i:59002 original size:42 final size:40
Alignment explanation
Indices: 58926--59038 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 40
58916 TTTTGTTACG
* * *
58926 TTTT-TTCTTTTATTTATTTA-TTTTCCTTTTTTCTTATTTTT
1 TTTTATTC-TTTATTT-TTTACTTTTCATTTATTCTT-TTATT
*
58967 TATTTATTCTTTATTTTTTACTTTTGATTTATTCTTTTATT
1 T-TTTATTCTTTATTTTTTACTTTTCATTTATTCTTTTATT
*
59008 TTTTATTCTTTTTATTTTTACTTTTACATTT
1 TTTTATTCTTTAT-TTTTTACTTTT-CATTT
59039 TGTCCTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
40 11 0.18
41 21 0.34
42 26 0.43
43 3 0.05
ACGTcount: A:0.14, C:0.09, G:0.01, T:0.76
Consensus pattern (40 bp):
TTTTATTCTTTATTTTTTACTTTTCATTTATTCTTTTATT
Found at i:59027 original size:15 final size:15
Alignment explanation
Indices: 58926--59026 Score: 60
Period size: 14 Copynumber: 7.2 Consensus size: 15
58916 TTTTGTTACG
58926 TTTT-TTCTTTTATT
1 TTTTATTCTTTTATT
**
58940 TATTTA-T-TTTCCTT
1 T-TTTATTCTTTTATT
* *
58954 TTTTCTTATTTT-TT
1 TTTTATTCTTTTATT
*
58968 ATTTATTC-TTTATT
1 TTTTATTCTTTTATT
58982 TTTTA--CTTTTGA--
1 TTTTATTCTTTT-ATT
58994 -TTTATTCTTTTATT
1 TTTTATTCTTTTATT
59008 TTTTATTCTTTTTATT
1 TTTTATTC-TTTTATT
59024 TTT
1 TTT
59027 ACTTTTACAT
Statistics
Matches: 66, Mismatches: 8, Indels: 24
0.67 0.08 0.24
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 14 0.21
14 22 0.33
15 14 0.21
16 10 0.15
ACGTcount: A:0.13, C:0.08, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTATTCTTTTATT
Found at i:59153 original size:3 final size:3
Alignment explanation
Indices: 59145--59179 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
59135 TAATATTTAT
59145 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59180 CTAACATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:60945 original size:27 final size:25
Alignment explanation
Indices: 60891--60945 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
60881 ACATCTCATG
**
60891 CATTTTTTTTTGCATTTTGCATCTA
1 CATTTTTTTTTGCATTTTGCATAAA
60916 CATTTTATTTTTAAGCATTTT-CATAAA
1 CATTTT-TTTTT--GCATTTTGCATAAA
60943 CAT
1 CAT
60946 GAAATTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 7 0.28
28 7 0.28
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (25 bp):
CATTTTTTTTTGCATTTTGCATAAA
Found at i:62840 original size:22 final size:22
Alignment explanation
Indices: 62812--62860 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
62802 CCATCAATCA
62812 TTTGAGCATCAAATACCAAACC
1 TTTGAGCATCAAATACCAAACC
*
62834 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATACCAAACC
62856 TTTGA
1 TTTGA
62861 CCAAACACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (22 bp):
TTTGAGCATCAAATACCAAACC
Found at i:63295 original size:18 final size:18
Alignment explanation
Indices: 63268--63303 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63258 TCAACATCAA
*
63268 ATATTAGGGTATTTTTGG
1 ATATTAGGGTATCTTTGG
*
63286 ATATTGGGGTATCTTTGG
1 ATATTAGGGTATCTTTGG
63304 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (18 bp):
ATATTAGGGTATCTTTGG
Found at i:63874 original size:106 final size:105
Alignment explanation
Indices: 63752--64072 Score: 511
Period size: 106 Copynumber: 3.0 Consensus size: 105
63742 ATCGCGCCAT
* ** *
63752 TCAAGACAATACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTCCCAA
1 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAA
63817 TTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCA-AGCGAAGGATATTGGAC
63858 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAATC-ATTTCCCA
1 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAA-CAATTTCCCA
63922 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
65 ATTTCAGAGCCAATTTCAACTTCA-AGCGAAGGATATTGGAC
*
63964 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCC-A
1 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAA
* * *
64028 TTTCCAGAACCAATTTCAACTTCACGACGGAGGATATTGGAC
66 TTT-CAGAGCCAATTTCAACTTCAAG-CGAAGGATATTGGAC
64070 TCA
1 TCA
64073 GAAGGGGTTA
Statistics
Matches: 201, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
105 6 0.03
106 194 0.97
107 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (105 bp):
TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCAAGCGAAGGATATTGGAC
Found at i:64168 original size:264 final size:264
Alignment explanation
Indices: 63856--64335 Score: 827
Period size: 264 Copynumber: 1.8 Consensus size: 264
63846 AGGATATTGG
*
63856 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAATC-ATTTCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
* *
63920 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCGAGACAACACAAGTTCAAC
** *
63985 TTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCATTTCCAGAACCAATTTCAACTT
130 TTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTT
* * *
64050 CACGACGGAGGATATTGGACTCAGAAGGGGTTATCCGCGATTTCAACTCCACGACGAAGGATATC
195 CACAACGAAGGATATTAGACTCAGAAGGGGTTATCCGCGATTTCAACTCCACGACGAAGGATATC
64115 GTGCC
260 GTGCC
64120 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
64185 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCGAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCGAGACAACACAAGTTCAACT
* * **
64250 TCACAACGAATGGACGACTGGTTGTCAACCAACAATTTCCCAGTTCCAGAGTCAATTTCAACTTC
131 TCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTC
64315 ACAACGAAGGATATTAGACTC
196 ACAACGAAGGATATTAGACTC
64336 GAGACAGCAC
Statistics
Matches: 202, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
263 1 0.00
264 201 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (264 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCGAGACAACACAAGTTCAACT
TCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTC
ACAACGAAGGATATTAGACTCAGAAGGGGTTATCCGCGATTTCAACTCCACGACGAAGGATATCG
TGCC
Found at i:64447 original size:110 final size:108
Alignment explanation
Indices: 64089--64660 Score: 622
Period size: 110 Copynumber: 5.3 Consensus size: 108
64079 GTTATCCGCG
* * * *
64089 ATTTCAACTCCACGACGAAGGATATCGT-GCCACTCAAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACAACGAAGGATAT--TAG--ACTCGAGACAACACAAGCTCAACTTCACAACGA
* * * * *
64153 AGGGACGGCTGGTTGTCAACAAACAA-TTTCCCA-AT-TTCAGAGCCA
62 AGGGACGACTGGCTGTCAACAAACAACTTT-TCAGTTCTTCAGAGTCA
* * * *
64198 ATTTCAACTTCACAACGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAATGG
1 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGG
* * *
64263 ACGACTGGTTGTCAACCAACAA-TTTCCCAGTTC--CAGAGTCA
66 ACGACTGGCTGTCAACAAACAACTTT-TCAGTTCTTCAGAGTCA
* * *
64304 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGG
**
64369 GTGACTGGCTGTCAACAAACAACTTTTCAGTCTCATTCAGAGTCA
66 ACGACTGGCTGTCAACAAACAACTTTTCAGT-TC-TTCAGAGTCA
* **
64414 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAGTGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGG
* *
64479 GCGACTGGCTGTCAGCAAACAACTTTTCAGTCTCATTCAGAGTCA
66 ACGACTGGCTGTCAACAAACAACTTTTCAGT-TC-TTCAGAGTCA
* ** * * *
64524 ATTTTAACTTCACAGTGAAAGATATTAGACTCGAGACAACACAAGTTCAACTTTACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGG
* * * * **
64589 ACGGCTGGTTGTCAACAAACAAATTCTCAGTTC--CAGAACCA
66 ACGACTGGCTGTCAACAAACAACTTTTCAGTTCTTCAGAGTCA
* * *
64630 ATTTCAACTTCACAGCGGAGGATATTTGACT
1 ATTTCAACTTCACAACGAAGGATATTAGACT
64661 TGGAACAATA
Statistics
Matches: 408, Mismatches: 47, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
106 181 0.44
107 7 0.02
108 1 0.00
109 24 0.06
110 195 0.48
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (108 bp):
ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGG
ACGACTGGCTGTCAACAAACAACTTTTCAGTTCTTCAGAGTCA
Found at i:64466 original size:216 final size:216
Alignment explanation
Indices: 64120--64660 Score: 637
Period size: 216 Copynumber: 2.5 Consensus size: 216
64110 ATATCGTGCC
* * * * * *
64120 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAAATTCTC
* * * *
64185 A-AT-TTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCGAGACAACACAAGTTCAA
66 AGTTCTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAA
* * *
64248 CTTCACAACGAATGGACGACTGGTTGTCAACCAACAA-TTTCCCAGT-TC-CAGAGTCAATTTCA
131 CTTCACAACGAAGGGACGACTGGCTGTCAACAAACAACTTT-CCAGTCTCTCAGAGTCAATTTCA
*
64310 ACTTCACAACGAAGGATATTAG
195 ACTTCACAACGAAAGATATTAG
* * * ** * *
64332 ACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGGGTGACTGGCTGTCAACAAACAACTTTTC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAAATTCTC
* *
64397 AGTCTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTC
66 AGT-TC-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTC
** * * *
64462 AACTTCACAGTGAAGGGGCGACTGGCTGTCAGCAAACAACTTTTCAGTCTCATTCAGAGTCAATT
129 AACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAACTTTCCAGTCTC--TCAGAGTCAATT
* **
64527 TTAACTTCACAGTGAAAGATATTAG
192 TCAACTTCACAACGAAAGATATTAG
* * * *
64552 ACTCGAGACAACACAAGTTCAACTTTACAACGAAGGGACGGCTGGTTGTCAACAAACAAATTCTC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAAATTCTC
* * * *
64617 AGTTC--CAGAACCAATTTCAACTTCACAGCGGAGGATATTTGACT
66 AGTTCTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACT
64661 TGGAACAATA
Statistics
Matches: 274, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
212 54 0.20
214 1 0.00
216 123 0.45
217 5 0.02
219 2 0.01
220 89 0.32
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (216 bp):
ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAAATTCTC
AGTTCTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAA
CTTCACAACGAAGGGACGACTGGCTGTCAACAAACAACTTTCCAGTCTCTCAGAGTCAATTTCAA
CTTCACAACGAAAGATATTAG
Found at i:66562 original size:23 final size:23
Alignment explanation
Indices: 66502--66562 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
66492 AATTTGGTCC
*
66502 TTTTATTTTTTTTAACTATTCATT
1 TTTTAATTTTTTT-ACTATTCATT
* *
66526 TTTTAATTTATTTATTATT-ATT
1 TTTTAATTTTTTTACTATTCATT
66548 TTTTAATCTTTTTTA
1 TTTTAAT-TTTTTTA
66563 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 10 0.31
23 11 0.34
24 11 0.34
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTAATTTTTTTACTATTCATT
Found at i:66570 original size:24 final size:23
Alignment explanation
Indices: 66502--66570 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
66492 AATTTGGTCC
* * *
66502 TTTTATTTTTTTTAACTATTCATT
1 TTTTAATTTTTTTAA-TTTTTATT
* *
66526 TTTTAATTTATTT-ATTATTATT
1 TTTTAATTTTTTTAATTTTTATT
66548 TTTTAATCTTTTTTAATTTTTAT
1 TTTTAAT-TTTTTTAATTTTTAT
66571 ATATACATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 12 0.33
23 6 0.17
24 18 0.50
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTAATTTTTTTAATTTTTATT
Found at i:66627 original size:25 final size:22
Alignment explanation
Indices: 66598--66699 Score: 64
Period size: 25 Copynumber: 4.2 Consensus size: 22
66588 TTTTGTTACG
66598 TTTTTTCTTTTATTTATTTATTT
1 TTTTTTCTTTTATTT-TTTATTT
* *
66621 TCCTTTTT-TCTTAGTTTTTATTT
1 T--TTTTTCTTTTATTTTTTATTT
66644 ATTATTTAT-TCTTTATTTTTTACTTT
1 -TT-TTT-TCT-TTTATTTTTTA-TTT
*
66670 TGATTTATTCTTTTATTTTTTATTC
1 T--TTT-TTCTTTTATTTTTTATTT
66695 TTTTT
1 TTTTT
66700 ATTTTTACTT
Statistics
Matches: 63, Mismatches: 5, Indels: 23
0.69 0.05 0.25
Matches are distributed among these distances:
22 2 0.03
23 14 0.22
24 9 0.14
25 18 0.29
26 17 0.27
27 3 0.05
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTCTTTTATTTTTTATTT
Found at i:66701 original size:16 final size:15
Alignment explanation
Indices: 66641--66705 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 15
66631 TTAGTTTTTA
*
66641 TTTATTATTTATTC-
1 TTTATTTTTTATTCT
66655 TTTATTTTTTA--CT
1 TTTATTTTTTATTCT
66668 TTTGA---TTTATTCT
1 TTT-ATTTTTTATTCT
66681 TTTATTTTTTATTCTT
1 TTTATTTTTTATTC-T
66697 TTTATTTTT
1 TTTATTTTT
66706 ACTTTTACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 8 0.19
14 11 0.26
15 7 0.17
16 10 0.24
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTTTTTATTCT
Found at i:66706 original size:15 final size:14
Alignment explanation
Indices: 66641--66706 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
66631 TTAGTTTTTA
66641 TTTATTATTTATTC-
1 TTTATT-TTTATTCT
*
66655 TTTATTTTT-TACT
1 TTTATTTTTATTCT
66668 TTTGA--TTTATTCT
1 TTT-ATTTTTATTCT
66681 TTTATTTTTTATTCTT
1 TTTA-TTTTTATTC-T
66697 TTTATTTTTA
1 TTTATTTTTA
66707 CTTTTACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 6 0.14
13 12 0.28
14 7 0.16
15 13 0.30
16 5 0.12
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTATTTTTATTCT
Found at i:66731 original size:41 final size:40
Alignment explanation
Indices: 66648--66734 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 40
66638 TTATTTATTA
* * *
66648 TTTATTCTTTATTTTTTACTTTTGATTTATTCTTTTATTT
1 TTTATTCTTTATTTTTTACTTTTCATTTATTCCTTTACTT
*
66688 TTTATTCTTTTTATTTTTACTTTTACATTT-TGTCCTTT-CTT
1 TTTATTCTTTAT-TTTTTACTTTT-CATTTAT-TCCTTTACTT
66729 TTTATT
1 TTTATT
66735 TATGTAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.28
41 20 0.50
42 9 0.22
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (40 bp):
TTTATTCTTTATTTTTTACTTTTCATTTATTCCTTTACTT
Found at i:66731 original size:42 final size:40
Alignment explanation
Indices: 66641--66731 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
66631 TTAGTTTTTA
* * *
66641 TTTATTATTTATTCTTTATTTTTTACTTTTGATTTATTCT
1 TTTATTTTTTATTCTTTATTTTTTACTTTTCATTTATTCC
*
66681 TTTATTTTTTATTCTTTTTATTTTTACTTTTACATTT-TGTCC
1 TTTATTTTTTATTCTTTAT-TTTTTACTTTT-CATTTAT-TCC
*
66723 TTTCTTTTT
1 TTTATTTTT
66732 ATTTATGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 17 0.40
41 12 0.28
42 14 0.33
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (40 bp):
TTTATTTTTTATTCTTTATTTTTTACTTTTCATTTATTCC
Found at i:68630 original size:57 final size:57
Alignment explanation
Indices: 68563--68681 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 57
68553 GACTGGAGTC
*
68563 GGGGGTTTGTACACTGGAACT-GATGGAGGTAA-TGGTTTCTTGTATACAGGAACTGGA
1 GGGGGTTTGTACACTGGAACTGGA-GGAGG-AAGTGGTTTCTTATATACAGGAACTGGA
* * * * * *
68620 GGGGGTTTGTAGATTGGAATTGGAGGAGGAAGTGGTTTCTTATATACCGGATCTGGT
1 GGGGGTTTGTACACTGGAACTGGAGGAGGAAGTGGTTTCTTATATACAGGAACTGGA
68677 GGGGG
1 GGGGG
68682 AAGCGGTTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 2 0.04
57 49 0.92
58 2 0.04
ACGTcount: A:0.22, C:0.08, G:0.39, T:0.30
Consensus pattern (57 bp):
GGGGGTTTGTACACTGGAACTGGAGGAGGAAGTGGTTTCTTATATACAGGAACTGGA
Found at i:68870 original size:33 final size:33
Alignment explanation
Indices: 68634--68858 Score: 243
Period size: 33 Copynumber: 6.8 Consensus size: 33
68624 GTTTGTAGAT
* *
68634 TGGAATTGGAGGAGGAAGTGGTTTCTTATATAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
* * * * * *
68667 CGGATCTGGTGGGGGAAGCGGTTTCTTATATAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
* * * * * *
68700 TGGAACCGGAGGAGGATGTGGTTTCCTATAGAT
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
68733 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
* * * * *
68766 TGGAAATGGCGGAGGATGTGGCTTTTTGTATAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
* * *
68799 TGGTACTGGCGGAGGAAGTGGCTTCTTGTATAC
1 TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
*
68832 TGGAACTGGTGGAGGAAGTGGCTTCTT
1 TGGAACTGGAGGAGGAAGTGGCTTCTT
68859 GTATTTTGGA
Statistics
Matches: 159, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 159 1.00
ACGTcount: A:0.22, C:0.12, G:0.36, T:0.30
Consensus pattern (33 bp):
TGGAACTGGAGGAGGAAGTGGCTTCTTATATAC
Found at i:68939 original size:57 final size:57
Alignment explanation
Indices: 68832--68940 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
68822 TCTTGTATAC
* * ** *
68832 TGGAACTGGTGGAGGAAGTGGCTTCTTGTATTTTGGAACCGGTGGAGGTTTATAGAT
1 TGGAACAGGTGGAGGAAGTGGCTTCTTATATACTGGAACCGGCGGAGGTTTATAGAT
* * *
68889 TGGAACAGGTGGAGGAAGTGG-TTTTTCATATACTGGAACTGGCGGTGGTTTA
1 TGGAACAGGTGGAGGAAGTGGCTTCTT-ATATACTGGAACCGGCGGAGGTTTA
68941 GACACCGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 4 0.09
57 39 0.91
ACGTcount: A:0.22, C:0.09, G:0.37, T:0.32
Consensus pattern (57 bp):
TGGAACAGGTGGAGGAAGTGGCTTCTTATATACTGGAACCGGCGGAGGTTTATAGAT
Found at i:73709 original size:33 final size:33
Alignment explanation
Indices: 73602--73894 Score: 207
Period size: 33 Copynumber: 8.7 Consensus size: 33
73592 CGGAGGTTGT
* *
73602 TTGTACACTGGAACTGGTGGAGGTAA-TGGTTTC
1 TTGTATACTGGAACTGGAGGAGG-AAGTGGTTTC
* * *
73635 CTGTATACAGGAACTGGAGGAGGAAATGGTTTC
1 TTGTATACTGGAACTGGAGGAGGAAGTGGTTTC
* * *
73668 TTATATACCGGAACTGGTGGAGGAAGTGGTTTC
1 TTGTATACTGGAACTGGAGGAGGAAGTGGTTTC
* * * * * ***
73701 TTGTATACCGGGACCGGAGGAGATTTATAGACCGGAGGC
1 TTGTATACTGGAACTGGAGGAG---GA-AG--TGGTTTC
* * *
73740 TTGTAAACTGGGACTGGA-GATGGATGTGGTTTC
1 TTGTATACTGGAACTGGAGGA-GGAAGTGGTTTC
* * *
73773 TTATAGACTGGAACTGGA-GAGGGATGTGGTTTC
1 TTGTATACTGGAACTGGAGGA-GGAAGTGGTTTC
* * * *
73806 TTATGTACTGGAACTGGAGGAAGAAGTGGCTTC
1 TTGTATACTGGAACTGGAGGAGGAAGTGGTTTC
*
73839 TTGTATACTGGAACTGGTGGAGGAAGTGGTTT-
1 TTGTATACTGGAACTGGAGGAGGAAGTGGTTTC
* *
73871 TTCATATACTGGAACTGGCGGAGG
1 TT-GTATACTGGAACTGGAGGAGG
73895 TTTAGACACC
Statistics
Matches: 207, Mismatches: 43, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
32 4 0.02
33 175 0.85
34 2 0.01
35 1 0.00
36 2 0.01
37 2 0.01
38 2 0.01
39 19 0.09
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.29
Consensus pattern (33 bp):
TTGTATACTGGAACTGGAGGAGGAAGTGGTTTC
Found at i:76413 original size:24 final size:24
Alignment explanation
Indices: 76386--76473 Score: 124
Period size: 24 Copynumber: 3.5 Consensus size: 24
76376 AAATTAAACG
76386 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATTAAAA
*
76410 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT---ACCGGATTAAAA
76437 ACCGG-TTTTTTATCCGGATTAAAA
1 ACCGGTTTTTTTA-CCGGATTAAAA
76461 ACCGGTTTTTTTA
1 ACCGGTTTTTTTA
76474 AAAAACCGGT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
23 1 0.02
24 27 0.47
25 7 0.12
26 6 0.11
27 16 0.28
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATTAAAA
Found at i:76421 original size:27 final size:27
Alignment explanation
Indices: 76391--76472 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
76381 AAACGACCGG
76391 TTTTTT-TACCGGATTAAAAACCGGTT
1 TTTTTTATACCGGATTAAAAACCGGTT
* * *
76417 TTTTTCAAACCGGATAAAAAACCGG--
1 TTTTTTATACCGGATTAAAAACCGGTT
76442 TTTTTTAT-CCGGATTAAAAACCGGTT
1 TTTTTTATACCGGATTAAAAACCGGTT
76468 TTTTT
1 TTTTT
76473 AAAAAACCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 15 0.32
25 6 0.13
26 10 0.21
27 16 0.34
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
TTTTTTATACCGGATTAAAAACCGGTT
Found at i:76476 original size:16 final size:17
Alignment explanation
Indices: 76457--76529 Score: 65
Period size: 17 Copynumber: 3.9 Consensus size: 17
76447 TATCCGGATT
76457 AAAAACCGGTTTTTTTA
1 AAAAACCGGTTTTTTTA
*
76474 AAAAACCGGTTTTTTAACCGAA
1 AAAAACCGGTTTTTT-----TA
*
76496 AAAAATCCGGTTTTTTTTT
1 AAAAA-CCGG-TTTTTTTA
76515 AAAAACCGGTTTTTT
1 AAAAACCGGTTTTTT
76530 GCAAACTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
17 21 0.46
18 4 0.09
19 5 0.11
22 6 0.13
23 4 0.09
24 6 0.13
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (17 bp):
AAAAACCGGTTTTTTTA
Found at i:76506 original size:40 final size:42
Alignment explanation
Indices: 76431--76529 Score: 141
Period size: 41 Copynumber: 2.4 Consensus size: 42
76421 TCAAACCGGA
* *
76431 TAAAAAACCGGTTTTTTATCCGGATTAAAAACCGG-TTTTTT
1 TAAAAAACCGGTTTTTTAACCGGATAAAAAACCGGTTTTTTT
76472 TAAAAAACCGGTTTTTTAACC-GA-AAAAAATCCGGTTTTTTT
1 TAAAAAACCGGTTTTTTAACCGGATAAAAAA-CCGGTTTTTTT
*
76513 TTAAAAACCGGTTTTTT
1 TAAAAAACCGGTTTTTT
76530 GCAAACTGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 5 0.09
40 6 0.11
41 42 0.79
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (42 bp):
TAAAAAACCGGTTTTTTAACCGGATAAAAAACCGGTTTTTTT
Found at i:83058 original size:32 final size:31
Alignment explanation
Indices: 83005--83064 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
82995 AATGTTTGGG
*
83005 GAAATTTAAATTACACCCCTCAATTTTGTTA
1 GAAATTTAAATTACACCCCTCAAATTTGTTA
* **
83036 GAAATTTTAATTAGGCCTCCTCAAATTTG
1 GAAATTTAAATTACACC-CCTCAAATTTG
83065 CTAAAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 14 0.58
32 10 0.42
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (31 bp):
GAAATTTAAATTACACCCCTCAAATTTGTTA
Found at i:84458 original size:23 final size:22
Alignment explanation
Indices: 84432--84476 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
84422 TTATTATATT
84432 TTTAA-TATTTTATATTTAATTTA
1 TTTAAGTATTTTA-ATTT-ATTTA
84455 TTTAAGTATTTTAATTTATTTA
1 TTTAAGTATTTTAATTTATTTA
84477 ATATTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
24 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTAAGTATTTTAATTTATTTA
Found at i:84481 original size:17 final size:17
Alignment explanation
Indices: 84437--84484 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
84427 ATATTTTTAA
*
84437 TATTTTATA-TTTAATT
1 TATTTAATATTTTAATT
84453 TATTTAAGTATTTTAATT
1 TATTTAA-TATTTTAATT
84471 TATTTAATATTTTA
1 TATTTAATATTTTA
84485 CTTATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 6 0.21
17 9 0.31
18 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTTAATATTTTAATT
Found at i:91536 original size:20 final size:20
Alignment explanation
Indices: 91513--91573 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
91503 TTGAATGGTT
91513 AAAAATATATCATAAAGACA
1 AAAAATATATCATAAAGACA
*
91533 AAAAATATGA-CATAAAAACA
1 AAAAATAT-ATCATAAAGACA
91553 AAAAA-A-ATCATAAAGA-A
1 AAAAATATATCATAAAGACA
91570 AAAA
1 AAAA
91574 TTATTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 6 0.16
18 7 0.19
19 1 0.03
20 22 0.59
21 1 0.03
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAATATATCATAAAGACA
Found at i:91623 original size:12 final size:11
Alignment explanation
Indices: 91579--91627 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
91569 AAAAATTATT
* *
91579 ATAAATTAAAT
1 ATAAATAAAAA
91590 ATAAATAAATAA
1 ATAAATAAA-AA
*
91602 ATATATAAAAA
1 ATAAATAAAAA
*
91613 ATAAATGAAAA
1 ATAAATAAAAA
91624 ATAA
1 ATAA
91628 CGAACACATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:119175 original size:62 final size:61
Alignment explanation
Indices: 119065--119405 Score: 183
Period size: 62 Copynumber: 5.5 Consensus size: 61
119055 AATGACCAAC
* * *
119065 AAAATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAGAA-AATCGCAACGGTCAAAAG
1 AAAATCGCAACGCGATTTCCAAGAATCGCAATGCGATTCA-AAGAATCGCAACGGTCAAAAG
** * *
119124 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAGAATCGCAATGCGATTC-CAAG
1 AAAATCGCAACGCGAT-TTCCAAGAATCGCAATGCGATTCAAAGAATCGCAA--CG-GTCAAAAG
* * **
119188 --AATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCAAAGAATCGCAAC-G-CGATTGAG
1 AAAATCGCAACGCGAT-TTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGGTC-A-AAAG
* * *
119248 AAAATCGCAACGCGA-TTCCAATAATCGCAAAATCGCAACGCGATTCCAATAATCGCAAC-G-CG
1 AAAATCGCAACGCGATTTCC---AA--G---AATCGCAATGCGATTCAAAGAATCGCAACGGTC-
**
119310 ATTGAG
57 A-AAAG
* * * **
119316 AAAATCGCAACGCGA-TTCCAAGAATCGCAACGTGATTGAGAA-AATCGCAAC-G-CGATTGAG
1 AAAATCGCAACGCGATTTCCAAGAATCGCAATGCGATTCA-AAGAATCGCAACGGTC-A-AAAG
*
119376 AAAATCGCAATGCGA-TTCCAAGAATCGCAA
1 AAAATCGCAACGCGATTTCCAAGAATCGCAA
119406 AACGACAAAA
Statistics
Matches: 238, Mismatches: 23, Indels: 41
0.79 0.08 0.14
Matches are distributed among these distances:
57 1 0.00
59 16 0.07
60 68 0.29
61 7 0.03
62 79 0.33
63 3 0.01
64 5 0.02
65 5 0.02
68 54 0.23
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (61 bp):
AAAATCGCAACGCGATTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGGTCAAAAG
Found at i:119288 original size:28 final size:28
Alignment explanation
Indices: 119248--119305 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
119238 CGCGATTGAG
119248 AAAATCGCAACGCGATTCCAATAATCGC
1 AAAATCGCAACGCGATTCCAATAATCGC
119276 AAAATCGCAACGCGATTCCAATAATCGC
1 AAAATCGCAACGCGATTCCAATAATCGC
119304 AA
1 AA
119306 CGCGATTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.41, C:0.28, G:0.14, T:0.17
Consensus pattern (28 bp):
AAAATCGCAACGCGATTCCAATAATCGC
Found at i:119401 original size:20 final size:20
Alignment explanation
Indices: 119067--119405 Score: 214
Period size: 20 Copynumber: 16.4 Consensus size: 20
119057 TGACCAACAA
119067 AATCGCAACGCGATAT-CAA-
1 AATCGCAACGCGAT-TCCAAG
* *
119086 AATCGCAACGCGATT-TAGAA
1 AATCGCAACGCGATTCCA-AG
*
119106 AATCGCAACG-G--TCAAAAG
1 AATCGCAACGCGATTC-CAAG
119124 AAAATCGCAACGCGATCTTCCAAG
1 --AATCGCAACGCGA--TTCCAAG
* *
119148 AATCGCAATGCGA-GCCAAAG
1 AATCGCAACGCGATTCC-AAG
*
119168 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
119188 AATCGCAATGCGATCTTCGAAG
1 AATCGCAACGCGA--TTCCAAG
* *
119210 AATCGCAATGCGATTCAAAG
1 AATCGCAACGCGATTCCAAG
* *
119230 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
119250 AATCGCAACGCGATTCCAATAATCG
1 AATCGCAACGCGATTCC---AA--G
*
119275 CAAAATCGCAACGCGATTCCAAT
1 ---AATCGCAACGCGATTCCAAG
* *
119298 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
119318 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* * *
119338 AATCGCAACGTGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
* *
119358 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
119378 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
119398 AATCGCAA
1 AATCGCAA
119406 AACGACAAAA
Statistics
Matches: 265, Mismatches: 26, Indels: 57
0.76 0.07 0.16
Matches are distributed among these distances:
17 1 0.00
18 3 0.01
19 22 0.08
20 177 0.67
21 5 0.02
22 31 0.12
23 1 0.00
24 4 0.02
25 4 0.02
28 17 0.06
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:119527 original size:6 final size:6
Alignment explanation
Indices: 119516--119614 Score: 198
Period size: 6 Copynumber: 16.5 Consensus size: 6
119506 GACACGTATT
119516 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
119564 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
119612 ACC
1 ACC
119615 CGAGACGGCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:120372 original size:6 final size:6
Alignment explanation
Indices: 120361--120387 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
120351 TCTCGTCTCG
120361 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
120388 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:120523 original size:20 final size:20
Alignment explanation
Indices: 120498--120565 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
120488 TTTTGCCGTT
120498 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
120518 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
120538 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
120558 TTGCGATT
1 TTGCGATT
120566 TTCTCAATCG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:120545 original size:40 final size:40
Alignment explanation
Indices: 120498--120576 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
120488 TTTTGCCGTT
*
120498 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
120538 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGC
1 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGC
120577 TTGGAAGATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (40 bp):
TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:120574 original size:20 final size:20
Alignment explanation
Indices: 120511--120576 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
120501 CGATTCTTGG
120511 AATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTC
* * *
120531 AATCGCATTGCGA-TTCCTGG
1 AATCGCGTTGCGATTTTCT-C
120551 AATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTC
120571 AATCGC
1 AATCGC
120577 TTGGAAGATC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
19 4 0.11
20 30 0.79
21 4 0.11
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCTC
Found at i:120613 original size:20 final size:20
Alignment explanation
Indices: 120588--120641 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
120578 TGGAAGATCG
* *
120588 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
120608 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
*
120628 CATTGCGATTTTCT
1 CGTTGCGATTTTCT
120642 AAATCGCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:132295 original size:20 final size:20
Alignment explanation
Indices: 132259--132296 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
132249 ATCCTATTCC
**
132259 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
132279 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
132297 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:141262 original size:23 final size:23
Alignment explanation
Indices: 141180--141253 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
141170 CTAGTAATTA
**
141180 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* * *
141203 ACTTATTACATTATATAAGCACA
1 ACCTATTACATTATATAAGCGCT
141226 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
141249 ACCTA
1 ACCTA
141254 ATATGTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:142021 original size:272 final size:273
Alignment explanation
Indices: 141511--142058 Score: 992
Period size: 272 Copynumber: 2.0 Consensus size: 273
141501 TTTCAAAAAA
*
141511 TTTTAAAAGTGTTTCATGTTTTCACCTACAATATTAATTTAATAATTTCATTTACAAAAAAAATT
1 TTTTAAAAGTATTTCATGTTTTCACCTACAATATTAATTTAATAATTTCATTTAC-AAAAAAATT
*
141576 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACTAAAG
65 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAG
141641 ATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACA
130 ATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACA
* *
141706 TAAAAATAAACCATTAGACGTGTATAATTATTAAATTAATATCTTAAAACTCACTAAAAAA-ATA
195 TAAAAATAAACCATTAGACGTGTATAATTACTAAAATAATATCTTAAAACTCACTAAAAAAGATA
141770 ACATAACCGGTTAT
260 ACATAACCGGTTAT
* * *
141784 TTTTAATAGTATTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC-ACAAAATT
1 TTTTAAAAGTATTTCATGTTTT-CACCTACAATATTAATTTAATAATTTCATTTACAAAAAAATT
*
141848 ATTTTATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAG
65 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAG
141913 ATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACA
130 ATAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACA
141978 TAAAAATAAACCATTAGACGTGTATAATTACTAAAATAATATCTTAAAACTCACTAAAAAAGATA
195 TAAAAATAAACCATTAGACGTGTATAATTACTAAAATAATATCTTAAAACTCACTAAAAAAGATA
142043 ACATAACCGGTTAT
260 ACATAACCGGTTAT
142057 TT
1 TT
142059 ACTCGAAACA
Statistics
Matches: 265, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
272 194 0.73
273 38 0.14
274 33 0.12
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (273 bp):
TTTTAAAAGTATTTCATGTTTTCACCTACAATATTAATTTAATAATTTCATTTACAAAAAAATTA
TTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAGA
TAATAATAAATATGTAATATCTATGTTTATTATTTTTAATTTAATAATAATATATATCGTAACAT
AAAAATAAACCATTAGACGTGTATAATTACTAAAATAATATCTTAAAACTCACTAAAAAAGATAA
CATAACCGGTTAT
Found at i:142633 original size:23 final size:23
Alignment explanation
Indices: 142514--142624 Score: 177
Period size: 23 Copynumber: 4.8 Consensus size: 23
142504 AACATATTTT
142514 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
142537 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACCTATTAC
*
142560 ATTATATAAACGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
**
142583 ATTATATAAATGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
142606 ATTATATAAGCGGTACCTA
1 ATTATATAAGCGCTACCTA
142625 ATATGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:153781 original size:235 final size:237
Alignment explanation
Indices: 153367--153839 Score: 916
Period size: 235 Copynumber: 2.0 Consensus size: 237
153357 GAAGTGTGTC
153367 ATACAGGCTTGAACTTGTCAAAATGTTATTATTTGTTGGGATGCAAGGCCATGTGATTCCTCCCG
1 ATACAGGCTTGAACTTGTCAAAATGTTATTATTTGTTGGGATGCAAGGCCATGTGATTCCTCCCG
153432 ATAGATATCTCCAAAGAACTTTCTCTTCACCACTCAAGTAGCCTTGGACTGCTGACCATATACAA
66 ATAGATATCTCCAAAGAACTTTCTCTTCACCACTCAAGTAGCCTTGGACTGCTGACCATATACAA
153497 TATTTGTTCTTTTAAATACAAATTCTAAAGCATAGCTCCACCAAGTGCCAAAGCCTTTCCTAGCT
131 TATTTGTTCTTTTAAATACAAATTCTAAAGCATAGCTCCACCAAGTGCCAAAGCCTTTCCTAGCT
153562 ACTTC-ATAAATTCCAATTCCACACTCAGA-TTCCTCATCCT
196 ACTTCAATAAATTCCAATTCCACACTCAGATTTCCTCATCCT
153602 ATACAGGCTTGAACTTGTCAAAATGTTATTATTTGTTGGGATGCAAGGCCATGTGATTCCTCCCG
1 ATACAGGCTTGAACTTGTCAAAATGTTATTATTTGTTGGGATGCAAGGCCATGTGATTCCTCCCG
153667 ATAGATATCTCCAAAGAACTTTCTCTTCACCACTCAAGTAGCCTTGGACTGCTGACCATATACAA
66 ATAGATATCTCCAAAGAACTTTCTCTTCACCACTCAAGTAGCCTTGGACTGCTGACCATATACAA
153732 TATTTGTTCTTTATAAATACAAATTCTAAAGCATAGCTCCACC-AGTGCCAAAGCCTTTCCTAGC
131 TATTTGTTCTTT-TAAATACAAATTCTAAAGCATAGCTCCACCAAGTGCCAAAGCCTTTCCTAGC
153796 TACTTCAATAAATTCCAATTCCACACTCAGATTTCCTCATCCT
195 TACTTCAATAAATTCCAATTCCACACTCAGATTTCCTCATCCT
153839 A
1 A
153840 CAATCACACA
Statistics
Matches: 235, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
235 169 0.72
236 54 0.23
237 12 0.05
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (237 bp):
ATACAGGCTTGAACTTGTCAAAATGTTATTATTTGTTGGGATGCAAGGCCATGTGATTCCTCCCG
ATAGATATCTCCAAAGAACTTTCTCTTCACCACTCAAGTAGCCTTGGACTGCTGACCATATACAA
TATTTGTTCTTTTAAATACAAATTCTAAAGCATAGCTCCACCAAGTGCCAAAGCCTTTCCTAGCT
ACTTCAATAAATTCCAATTCCACACTCAGATTTCCTCATCCT
Found at i:163392 original size:2 final size:2
Alignment explanation
Indices: 163385--163410 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
163375 CAGAGAAATA
163385 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
163411 TCCTCTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163976 original size:44 final size:44
Alignment explanation
Indices: 163913--164000 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
163903 TTTTCATTTT
163913 GCTGATGAAATATGGATAAACTGAATTGACATACTGACCATGCA
1 GCTGATGAAATATGGATAAACTGAATTGACATACTGACCATGCA
163957 GCTGATGAAATATGGATAAACTGAATTGACATACTGACCATGCA
1 GCTGATGAAATATGGATAAACTGAATTGACATACTGACCATGCA
164001 ACTCTATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (44 bp):
GCTGATGAAATATGGATAAACTGAATTGACATACTGACCATGCA
Found at i:170396 original size:30 final size:30
Alignment explanation
Indices: 170362--170419 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
170352 AGAAAAAAAA
** *
170362 AGAAACTTAATGGATTAAAACATCAAAACC
1 AGAAACTTAAAAGATTAAAACAGCAAAACC
*
170392 AGAAATTTAAAAGATTAAAACAGCAAAA
1 AGAAACTTAAAAGATTAAAACAGCAAAA
170420 TAAGAAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.19
Consensus pattern (30 bp):
AGAAACTTAAAAGATTAAAACAGCAAAACC
Found at i:171547 original size:2 final size:2
Alignment explanation
Indices: 171540--171582 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
171530 TAATTGTACA
* *
171540 AT AT AT AT AT AT AT AA AT AT A- AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
171581 AT
1 AT
171583 TTATTTCGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:172148 original size:106 final size:106
Alignment explanation
Indices: 171871--173342 Score: 2344
Period size: 106 Copynumber: 13.9 Consensus size: 106
171861 GTACTGTTCC
* * * * * * * *
171871 GAGTCCAATATAC-TCTGTCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
* * *
171935 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
171977 GAGTCCAA-ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
172041 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
172082 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
172147 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
172188 GAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
172253 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
172294 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
172359 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
172400 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
172465 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
172506 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAAGTTATTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTATTGACA
172570 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
172612 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
172677 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCTTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
172718 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
172783 CAAGTGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
172824 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
172889 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
172930 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
172995 CCAGCGGTCCCTTCGTCGTGGAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
173036 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAAGTTATTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTATTGACA
173100 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
173142 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
173207 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** * * *
173248 GAGTCCACTATCATTCACTGTGAAGTTGAAATTGGCTCTAGAAGTGGA-AAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAAGTTGTTTATTGACA
*
173312 ACCAGCGGTCCCTTCTTCGTGAAGTTGAACT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
173343 GGATTTGTTT
Statistics
Matches: 1274, Mismatches: 84, Indels: 16
0.93 0.06 0.01
Matches are distributed among these distances:
104 1 0.00
105 92 0.07
106 1173 0.92
107 8 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:177221 original size:30 final size:30
Alignment explanation
Indices: 177187--177244 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
177177 GAGAAAAAAA
** *
177187 AGAAACTTAATGGATTAAAACATCAAAACC
1 AGAAACTTAAAAGATTAAAACAGCAAAACC
*
177217 AGAAATTTAAAAGATTAAAACAGCAAAA
1 AGAAACTTAAAAGATTAAAACAGCAAAA
177245 TAAGAAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.19
Consensus pattern (30 bp):
AGAAACTTAAAAGATTAAAACAGCAAAACC
Found at i:178376 original size:2 final size:2
Alignment explanation
Indices: 178369--178405 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
178359 TAATTGTACA
*
178369 AT AT AT AT AT AT AT A- AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178406 TTATTTCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:179145 original size:17 final size:19
Alignment explanation
Indices: 179105--179147 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
179095 AAATTTCAGC
*
179105 TATAATTATTTTAAATATT
1 TATAATTATCTTAAATATT
179124 T-TAATTA-CTTAAA-ATT
1 TATAATTATCTTAAATATT
179140 TATAATTA
1 TATAATTA
179148 ATAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 6 0.27
19 1 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATTATCTTAAATATT
Found at i:181093 original size:21 final size:21
Alignment explanation
Indices: 181026--181093 Score: 111
Period size: 21 Copynumber: 3.2 Consensus size: 21
181016 CAACATAATT
181026 TTTTTTAATTTTTTATTAAATG
1 TTTTTT-ATTTTTTATTAAATG
*
181048 CTTTTTATTTTTTATTAAATG
1 TTTTTTATTTTTTATTAAATG
181069 TTTTTTATTTTTTATTAAAT-
1 TTTTTTATTTTTTATTAAATG
181089 TTTTT
1 TTTTT
181094 AAATAATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.11
21 34 0.77
22 5 0.11
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTTATTTTTTATTAAATG
Found at i:183900 original size:22 final size:22
Alignment explanation
Indices: 183860--183920 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
183850 GGGTCTACGC
* * *
183860 GGTCCTTCGAGACATATACAGA
1 GGTCCTTCGGGATAAATACAGA
*
183882 GGTCCTTCGGGATAAATACATA
1 GGTCCTTCGGGATAAATACAGA
* *
183904 GGTCATTTGGGATAAAT
1 GGTCCTTCGGGATAAAT
183921 TTCACATGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (22 bp):
GGTCCTTCGGGATAAATACAGA
Found at i:184606 original size:21 final size:21
Alignment explanation
Indices: 184582--184622 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
184572 CTGAAAGTAC
*
184582 TGTAGCAGTGCATCGGTACAT
1 TGTAGCAGTGCATCGATACAT
184603 TGTAGCAGTGCATCGATACA
1 TGTAGCAGTGCATCGATACA
184623 CATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATACAT
Found at i:186840 original size:2 final size:2
Alignment explanation
Indices: 186835--186877 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
186825 ATATATGCAC
186835 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
186877 T
1 T
186878 GGAAGGTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:187042 original size:2 final size:2
Alignment explanation
Indices: 187035--187086 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
187025 CTGAAGTTAT
187035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
187077 TA TA TA TA TA
1 TA TA TA TA TA
187087 GAGAGAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:187091 original size:2 final size:2
Alignment explanation
Indices: 187086--187125 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
187076 ATATATATAT
187086 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
187126 GGAGGGAGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:189102 original size:2 final size:2
Alignment explanation
Indices: 189095--189130 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
189085 TGCATATTAG
189095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
189131 GTGATGAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:193188 original size:31 final size:31
Alignment explanation
Indices: 193153--193215 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
193143 GTCTTGTTAG
193153 ATCCTATTAAATTAATGACGTGTCACCTTAA
1 ATCCTATTAAATTAATGACGTGTCACCTTAA
193184 ATCCTATTAAATTAATGACGTGTCACCTTAA
1 ATCCTATTAAATTAATGACGTGTCACCTTAA
193215 A
1 A
193216 ATAAAATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (31 bp):
ATCCTATTAAATTAATGACGTGTCACCTTAA
Found at i:193415 original size:16 final size:16
Alignment explanation
Indices: 193379--193416 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
193369 CATTTGGAGA
*
193379 ATATTT-TTAATATTT
1 ATATTTATTAAGATTT
193394 -TATTTATTAAGATTT
1 ATATTTATTAAGATTT
193409 ATATTTAT
1 ATATTTAT
193417 CAAATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATATTTATTAAGATTT
Found at i:193593 original size:42 final size:43
Alignment explanation
Indices: 193546--193628 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
193536 AACTGCGATT
* *
193546 GCATTAGATTTAATCACA-TAAATAAAA-TTAAAATTGGAATAA
1 GCATTAGATTTAACCACATTAAATAAAAGAT-AAATTGGAATAA
193588 GCATTAGATTTAACCACATTAAATAAAAGATAAATTGGAAT
1 GCATTAGATTTAACCACATTAAATAAAAGATAAATTGGAAT
193629 TTGGAAGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 17 0.46
43 19 0.51
44 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (43 bp):
GCATTAGATTTAACCACATTAAATAAAAGATAAATTGGAATAA
Found at i:196196 original size:29 final size:30
Alignment explanation
Indices: 196138--196197 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
196128 TTCTGAAACT
196138 AAAGTTTTCAATCAATAATTGCATGAAAGA
1 AAAGTTTTCAATCAATAATTGCATGAAAGA
196168 AAAGTTTTCAATCAA-AATTGCATGAAAGA
1 AAAGTTTTCAATCAATAATTGCATGAAAGA
196197 A
1 A
196198 GAAGGCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (30 bp):
AAAGTTTTCAATCAATAATTGCATGAAAGA
Found at i:200815 original size:2 final size:2
Alignment explanation
Indices: 200808--200832 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
200798 TAACTTATTA
200808 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
200833 ATAATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.