Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold286
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: 1428881
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 9
Found at i:582651 original size:81 final size:80
Alignment explanation
Indices: 582552--583003 Score: 482
Period size: 80 Copynumber: 5.7 Consensus size: 80
582542 AAATTTTTAA
* * * * *
582552 ATTTTTACTTCCAAAATATTGAATTGTTCACCGTCGGGGATATTCGAACCCCATCAATTTTTGAG
1 ATTTTTACTTCCAAAATATTGAATTTTTCACCATCGGGGATACTCCAACCCCATC-ATTTCTGAG
*
582617 GAGATACTCTAAACCT
65 GAGATACTCCAAACCT
* * *
582633 ATTTTTACTTCCAAAATATTGAATTTTTCACCATTGGGGATACTTCAACCCCATCATTTCTGAGA
1 ATTTTTACTTCCAAAATATTGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAGG
* *
582698 AGATACTCCAACCCC
66 AGATACTCCAAACCT
** * *
582713 ATTTTTACTTCCAAAATATCAAATTTTTTACCATCGGGGATACTCCAACCCCATCATTTCCTAAG
1 ATTTTTACTTCCAAAATATTGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTT-CTGAG
*
582778 G-GATACTCCAAACCA
65 GAGATACTCCAAACCT
* * * * * * * * * *
582793 ATTTTTATTTCCCAAATATCGAAATTTTCATC-TTGGGTATACTCTAACCCTATCATTTTTGAGG
1 ATTTTTACTTCCAAAATATTGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAGG
* *
582857 AGATATTCCAACCCT
66 AGATACTCCAAACCT
* * * * * *
582872 ATTTTTACTTCAAAAAGCATTGAATTTTTCACCATCGAGGATACTCCAACCCCACCATCTCCGAG
1 ATTTTTACTTCCAAAA-TATTGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAG
582937 G-GAATACTCC-AACCTT
65 GAG-ATACTCCAAACC-T
* * * *
582953 GTTTTTACTTCTAAAATCTTG-ATTTTTCACCATCGAGGATACTCCAACCCC
1 ATTTTTACTTCCAAAATATTGAATTTTTCACCATCGGGGATACTCCAACCCC
583004 TTTTTTATTT
Statistics
Matches: 308, Mismatches: 57, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
78 4 0.01
79 76 0.25
80 131 0.43
81 97 0.31
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (80 bp):
ATTTTTACTTCCAAAATATTGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAGG
AGATACTCCAAACCT
Found at i:583048 original size:50 final size:51
Alignment explanation
Indices: 582940--583049 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
582930 CTCCGAGGGA
*
582940 ATACTCCAACCTTGTTTTTACTTCTAAAATCTTGATTTTTCACCATCGAGG
1 ATACTCCAACCCTGTTTTTACTTCTAAAATCTTGATTTTTCACCATCGAGG
* * * **
582991 ATACTCCAACCCCT-TTTTTA-TTTTCAAAATTTTGATTTTTTACTGTCG-GG
1 ATACTCCAA-CCCTGTTTTTACTTCT-AAAATCTTGATTTTTCACCATCGAGG
583041 ATACTCCAA
1 ATACTCCAA
583050 TCCCATCATT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
50 14 0.27
51 34 0.67
52 3 0.06
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (51 bp):
ATACTCCAACCCTGTTTTTACTTCTAAAATCTTGATTTTTCACCATCGAGG
Found at i:583087 original size:78 final size:77
Alignment explanation
Indices: 582989--583159 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 77
582979 TCACCATCGA
* ** * *
582989 GGATACTCCAACCCCTTTTTTATTTTCAAAAT-TTTGATTTTTTA-CT-GTCGGGATACTCCAAT
1 GGATACTCCAA-CCCTTTTTTACTTTCAAAATATTAAATTTTTCATCTAG--GGGATACTCCAAC
* **
583051 CCCATCATTTTCGAAG
63 CCCACCATCATC-AAG
583067 GGATACTCCAACCCTGTTTTTACTTTCAAAATATTAAATTTTTCATCTAGGGGATACTCCAACCC
1 GGATACTCCAACCCT-TTTTTACTTTCAAAATATTAAATTTTTCATCTAGGGGATACTCCAACCC
583132 CACCATCATCAAG
65 CACCATCATCAAG
583145 GGAATACTCCAACCC
1 GG-ATACTCCAACCC
583160 AGATTTTCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
77 4 0.05
78 31 0.39
79 42 0.52
80 2 0.03
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (77 bp):
GGATACTCCAACCCTTTTTTACTTTCAAAATATTAAATTTTTCATCTAGGGGATACTCCAACCCC
ACCATCATCAAG
Found at i:589551 original size:35 final size:35
Alignment explanation
Indices: 589503--589571 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
589493 TGCCCGAGGT
589503 GTTAGCCTCGTTACGAGCATGAAAAATACTCCTAA
1 GTTAGCCTCGTTACGAGCATGAAAAATACTCCTAA
*
589538 GTTAGCCTTGTTACGAGCATGAAAAATACTCCTA
1 GTTAGCCTCGTTACGAGCATGAAAAATACTCCTA
589572 CTTGAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (35 bp):
GTTAGCCTCGTTACGAGCATGAAAAATACTCCTAA
Found at i:591496 original size:11 final size:11
Alignment explanation
Indices: 591482--591534 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
591472 TCTAAATAAG
591482 AAAAAAAGAGA
1 AAAAAAAGAGA
591493 AAAAAAA-AGGA
1 AAAAAAAGA-GA
*
591504 ACAAAAAGAGA
1 AAAAAAAGAGA
591515 AAAAAAAGA-A
1 AAAAAAAGAGA
591525 AGAAAAAAGA
1 A-AAAAAAGA
591535 ATGAAATGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 3 0.08
11 33 0.89
12 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:591531 original size:22 final size:22
Alignment explanation
Indices: 591482--591534 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
591472 TCTAAATAAG
*
591482 AAAAAAAGAGAAAAAAAAAGGA
1 AAAAAAAGAGAAAAAAAAAGAA
*
591504 ACAAAAAGAG-AAAAAAAAGAA
1 AAAAAAAGAGAAAAAAAAAGAA
591525 AGAAAAAAGA
1 A-AAAAAAGA
591535 ATGAAATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAGAAAAAAAAAGAA
Found at i:591535 original size:11 final size:10
Alignment explanation
Indices: 591479--591535 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
591469 TCCTCTAAAT
591479 AAGAAAAAAA
1 AAGAAAAAAA
*
591489 GAGAAAAAAA
1 AAGAAAAAAA
* *
591499 AAGGAACAAA
1 AAGAAAAAAA
591509 AAGAGAAAAAA
1 AAGA-AAAAAA
591520 AAGAAAGAAAA
1 AAGAAA-AAAA
591531 AAGAA
1 AAGAA
591536 TGAAATGGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
10 21 0.54
11 18 0.46
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:591540 original size:11 final size:11
Alignment explanation
Indices: 591479--591540 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
591469 TCCTCTAAAT
591479 AAGAAA-AAAA
1 AAGAAAGAAAA
*
591489 GAGAAA-AAAA
1 AAGAAAGAAAA
* *
591499 AAGGAA-CAAA
1 AAGAAAGAAAA
591509 AAGAGAA-AAAA
1 AAGA-AAGAAAA
591520 AAGAAAGAAAA
1 AAGAAAGAAAA
*
591531 AAGAATGAAA
1 AAGAAAGAAA
591541 TGGAAAAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
10 21 0.49
11 22 0.51
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:592735 original size:91 final size:91
Alignment explanation
Indices: 592557--592867 Score: 243
Period size: 91 Copynumber: 3.4 Consensus size: 91
592547 CTAATCATAT
* * * * * * **
592557 ACCACTAGATAGTATTGGTGCATCACAAAGCCT-AATTTCCTTAAAGAAAGGGTGCAGCCCATGC
1 ACCACTAAATGGTATCGATGCATCACAAAGCCTGATTTTCCTTAAAGAAAGGATGCAGCCCACAC
592621 ATCCCCAATCATATCTCCTTCATCCA
66 ATCCCCAATCATATCTCCTTCATCCA
* * **
592647 ACTACTAAATGGTATCGATGCATCACAAAGCCTGATTTTTCTTAGGGCAAA-GATGCAGCCCACA
1 ACCACTAAATGGTATCGATGCATCACAAAGCCTGATTTTCCTTAAAG-AAAGGATGCAGCCCACA
* *
592711 CATCTCCAATCATGTCT-CTCTCATCCA
65 CATCCCCAATCATATCTCCT-TCATCCA
* * * * * * * * *
592738 ACCACTAAATGGTTTTGATGCATTACAAAGCTTGA-TTTCCTTAAGGCAGGGATACATGCCATAC
1 ACCACTAAATGGTATCGATGCATCACAAAGCCTGATTTTCCTTAAAGAAAGGATGCA-GCC-CAC
* * * * *
592802 ACGTTCCCAATCGTGTCTCTTTCATCCA
64 ACATCCCCAATCATATCTCCTTCATCCA
* ** * * * *
592830 ACCAATGGATGATATTGATGCATCCCAAAGCCTAATTT
1 ACCACTAAATGGTATCGATGCATCACAAAGCCTGATTT
592868 CTAGGGCAAA
Statistics
Matches: 174, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
89 1 0.01
90 44 0.25
91 74 0.43
92 52 0.30
93 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (91 bp):
ACCACTAAATGGTATCGATGCATCACAAAGCCTGATTTTCCTTAAAGAAAGGATGCAGCCCACAC
ATCCCCAATCATATCTCCTTCATCCA
Found at i:593160 original size:45 final size:47
Alignment explanation
Indices: 593098--593216 Score: 125
Period size: 47 Copynumber: 2.6 Consensus size: 47
593088 ACCCTAGTTT
* *
593098 GACTGCATTGGTGTTAGGACTTGG-G-CAAACTTTTCATCCCTCATTT
1 GACTG-ATTGGTGTTAGGACCTGGTGACAAACTTTTCATCCCTCATTG
* * * **
593144 GATTTATTGGTGTTAGGGCCTGGTGACACTCTTTTCATCCCTCATTG
1 GACTGATTGGTGTTAGGACCTGGTGACAAACTTTTCATCCCTCATTG
* * *
593191 GACTGATTAGTGTTAGGGCCTAGTGA
1 GACTGATTGGTGTTAGGACCTGGTGA
593217 AACTCCAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 16 0.27
46 4 0.07
47 40 0.67
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (47 bp):
GACTGATTGGTGTTAGGACCTGGTGACAAACTTTTCATCCCTCATTG
Found at i:593185 original size:47 final size:47
Alignment explanation
Indices: 593127--593269 Score: 151
Period size: 47 Copynumber: 3.0 Consensus size: 47
593117 CTTGGGCAAA
* *
593127 CTTTTCATCCCTCATTTGATTTATTGGTGTTAGGGCCTGGTGACACT
1 CTTTTCATCCCTCATTTGATTTATTGGTGTTAGGGCCTAGTGAAACT
* * * *
593174 CTTTTCATCCCTCATTGGACTGATTAGTGTTAGGGCCTAGTGAAACT
1 CTTTTCATCCCTCATTTGATTTATTGGTGTTAGGGCCTAGTGAAACT
*** * * * * *
593221 CCAATCTTCCCTCGTTTGACTATATTGGTGTTAAGGCCTAGTCAAACT
1 CTTTTCATCCCTCATTTGA-TTTATTGGTGTTAGGGCCTAGTGAAACT
593269 C
1 C
593270 AAATCTTCCT
Statistics
Matches: 77, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 54 0.70
48 23 0.30
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (47 bp):
CTTTTCATCCCTCATTTGATTTATTGGTGTTAGGGCCTAGTGAAACT
Found at i:593259 original size:48 final size:48
Alignment explanation
Indices: 593134--593452 Score: 273
Period size: 48 Copynumber: 6.9 Consensus size: 48
593124 AAACTTTTCA
* * * * * *** *
593134 TCCCTCATTTGA-TTTATTGGTGTTAGGGCCTGGTGACACTCTTTTCA
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
* * * * * *
593181 TCCCTCATTGGACT-GATTAGTGTTAGGGCCTAGTGAAACTCCAATCT
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
*
593228 TCCCTCGTTTGACTATATTGGTGTTAAGGCCTAGTCAAACTCAAATCT
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
*
593276 TCCTTCGTTTGAC--------TGTTA-GGCCTAGTCAAACTCAAATCT
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
* * ** * *
593315 TCCTTTGTTTGACTATATTGGTAATAGGGCTTGGTCAAACTCAAATCT
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
* *** *
593363 TCCCTTGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCTTTTCA
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
* * * *
593411 TCCCTTGTTTGACTGTATTGGTGTTAGGACCTCGTCAAACTC
1 TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTC
593453 TTCTCAATTC
Statistics
Matches: 227, Mismatches: 34, Indels: 21
0.80 0.12 0.07
Matches are distributed among these distances:
39 33 0.15
40 5 0.02
47 51 0.22
48 138 0.61
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (48 bp):
TCCCTCGTTTGACTATATTGGTGTTAGGGCCTAGTCAAACTCAAATCT
Found at i:593304 original size:39 final size:40
Alignment explanation
Indices: 593249--593328 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
593239 ACTATATTGG
593249 TGTTAAGGCCTAGTCAAACTCAAATCTTCCTTCGTTTGAC
1 TGTTAAGGCCTAGTCAAACTCAAATCTTCCTTCGTTTGAC
*
593289 TGTT-AGGCCTAGTCAAACTCAAATCTTCCTTTGTTTGAC
1 TGTTAAGGCCTAGTCAAACTCAAATCTTCCTTCGTTTGAC
593328 T
1 T
593329 ATATTGGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 35 0.90
40 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (40 bp):
TGTTAAGGCCTAGTCAAACTCAAATCTTCCTTCGTTTGAC
Found at i:593353 original size:87 final size:88
Alignment explanation
Indices: 593201--593376 Score: 248
Period size: 87 Copynumber: 2.0 Consensus size: 88
593191 GACTGATTAG
* * **
593201 TGTTAGGGCCTAGTGAAACTCCAATCTTCCCTCGTTTGACTATATTGGTGTTAAGGCCTAGTCAA
1 TGTTAGGGCCTAGTCAAACTCAAATCTTCCCTCGTTTGACTATATTGGTAATAAGGCCTAGTCAA
593266 ACTCAAATCTT-CCTTCGTTTGAC
66 ACTCAAATCTTCCCTT-GTTTGAC
* * * * *
593289 TGTTA-GGCCTAGTCAAACTCAAATCTTCCTTTGTTTGACTATATTGGTAATAGGGCTTGGTCAA
1 TGTTAGGGCCTAGTCAAACTCAAATCTTCCCTCGTTTGACTATATTGGTAATAAGGCCTAGTCAA
593353 ACTCAAATCTTCCCTTGTTTGAC
66 ACTCAAATCTTCCCTTGTTTGAC
593376 T
1 T
593377 ATATTGGTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 69 0.88
88 9 0.12
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (88 bp):
TGTTAGGGCCTAGTCAAACTCAAATCTTCCCTCGTTTGACTATATTGGTAATAAGGCCTAGTCAA
ACTCAAATCTTCCCTTGTTTGAC
Found at i:593603 original size:44 final size:44
Alignment explanation
Indices: 593471--594130 Score: 287
Period size: 44 Copynumber: 15.0 Consensus size: 44
593461 TCTGTCTGTT
* * **
593471 GTATGGTTACCA-CCTCGGTTAGATTCTTTTCATTTTAATTTGAC
1 GTATGGTTACCACCCT-AGTCAGATTCTTTTCATTTCGATTTGAC
* * * * ** * * *
593515 ATATGGTTACCATCCTAGTTA-AATCTACCTCCTTCTTG-TCTGAC
1 GTATGGTTACCACCCTAGTCAGATTCT-TTTCATT-TCGATTTGAC
* *
593559 GTATAGCTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
* * * * *
593603 GTATGGTTACCACCCTGGTTAGATT-TTTCTCAGTCCAATTTGAC
1 GTATGGTTACCACCCTAGTCAGATTCTTT-TCATTTCGATTTGAC
* * * ** *
593647 GTATTGTTACCACCCTAGTTA-AGTCTACCTC-TTTCCTG-TCTGAC
1 GTATGGTTACCACCCTAGTCAGATTCT-TTTCATTT-C-GATTTGAC
* * * ** *
593691 ATATGGTTACCACCCTAGTTAGATTCTTTTCATTACCTTTTGAG
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
* * * ** * * * *
593735 GTATGGTTACCAGCCTGGTCAAATTCACCTTC-TTCCTATCTAAC
1 GTATGGTTACCACCCTAGTCAGATTC-TTTTCATTTCGATTTGAC
* * * * * * *
593779 ATATGGCTACCACTCTGGTTAGATTCTTTTCATTGCGATTTGAT
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
* * * *
593823 GTATGGTTGCCACCCTAGTCA-AGTCATCCTTT--TTCCTG-TTTGAT
1 GTATGGTTACCACCCTAGTCAGA-T--TCTTTTCATTTC-GATTTGAC
* * * * * *
593867 GTATAGTTACCACGCTAGTCAGATTCTTTTTAGTCCAATTTGAC
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
* * ** * * *
593911 ATATGGTTACAACCCTAGTCATG-TT-TGCCTCTTTTCTATCTGAC
1 GTATGGTTACCACCCTAGTCA-GATTCT-TTTCATTTCGATTTGAC
* * * * *
593955 GTATGGTTACCACCCTGGTTAAATTCTTTTCA-TTCTGATTTAAT
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTC-GATTTGAC
*
593999 GTATGGTTACCACCCTAGTCAGATTTTTTTCA-TTCTGATTTGAC
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTC-GATTTGAC
* * * * * * *
594043 ATATAGTTACCACCCTGGTCA-AATCTACCTTCTTTTTG-TTTGAC
1 GTATGGTTACCACCCTAGTCAGATTCT--TTTCATTTCGATTTGAC
* * *
594087 GTATGGTTACCACCGTGGTCAAATTCTTTTCA-TTCTGATTTGAC
1 GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTC-GATTTGAC
594131 AAGTGATTAC
Statistics
Matches: 452, Mismatches: 130, Indels: 68
0.70 0.20 0.10
Matches are distributed among these distances:
42 7 0.02
43 27 0.06
44 381 0.84
45 30 0.07
46 7 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (44 bp):
GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
Found at i:593647 original size:88 final size:88
Alignment explanation
Indices: 593555--594061 Score: 381
Period size: 88 Copynumber: 5.8 Consensus size: 88
593545 CCTTCTTGTC
* * * * *
593555 TGACGTATAGCTACCACCCTAGTCAGATTCTTTTCATTTC-GATTTGACGTATGGTTACCACCCT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTCTTC-TTTCTGATCTGACATATGGTTACCACCCT
*
593619 GGTTAGATT-TTTCTCAGTCCAATT
65 GGTTAGATTCTTT-TCATTCCAATT
* * * *
593643 TGACGTATTGTTACCACCCTAGTTA-AGTCTACCTCTTTCCTG-TCTGACATATGGTTACCACCC
1 TGACGTATGGTTACCACCCTAGTCAGATTCT-CTTCTTT-CTGATCTGACATATGGTTACCACCC
* *
593706 TAGTTAGATTCTTTTCATTACC-TTT
64 TGGTTAGATTCTTTTCATT-CCAATT
* * * * * * * * *
593731 TGAGGTATGGTTACCAGCCTGGTCAAATTCACCTTCTTCCT-ATCTAACATATGGCTACCACTCT
1 TGACGTATGGTTACCACCCTAGTCAGATTC-TCTTCTTTCTGATCTGACATATGGTTACCACCCT
* *
593795 GGTTAGATTCTTTTCATTGCGATT
65 GGTTAGATTCTTTTCATTCCAATT
* * * * ** * *
593819 TGATGTATGGTTGCCACCCTAGTCA-AGTCATCCTT-TTTCCTG-TTTGATGTATAGTTACCACG
1 TGACGTATGGTTACCACCCTAGTCAGATTC-T-CTTCTTT-CTGATCTGACATATGGTTACCACC
* * * *
593881 CTAGTCAGATTCTTTTTAGTCCAATT
63 CTGGTTAGATTCTTTTCATTCCAATT
* * * *
593907 TGACATATGGTTACAACCCTAGTCATG-TT-TGCCTCTTTTCT-ATCTGACGTATGGTTACCACC
1 TGACGTATGGTTACCACCCTAGTCA-GATTCT-CTTC-TTTCTGATCTGACATATGGTTACCACC
* **
593969 CTGGTTAAATTCTTTTCATTCTGATT
63 CTGGTTAGATTCTTTTCATTCCAATT
* * * * * * *
593995 TAATGTATGGTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGACATATAGTTACCACCCTG
1 TGACGTATGGTTACCACCCTAGTCAGATTCTCTTCTTTCTGATCTGACATATGGTTACCACCCTG
594060 GT
66 GT
594062 CAAATCTACC
Statistics
Matches: 325, Mismatches: 74, Indels: 40
0.74 0.17 0.09
Matches are distributed among these distances:
87 22 0.07
88 284 0.87
89 19 0.06
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (88 bp):
TGACGTATGGTTACCACCCTAGTCAGATTCTCTTCTTTCTGATCTGACATATGGTTACCACCCTG
GTTAGATTCTTTTCATTCCAATT
Found at i:593708 original size:132 final size:132
Alignment explanation
Indices: 593471--594130 Score: 500
Period size: 132 Copynumber: 5.0 Consensus size: 132
593461 TCTGTCTGTT
* ** *
593471 GTATGGTTACCA-CCTCGGTTAGATTCTTTTCATTTTAATTTGACATATGGTTACCATCCTAGTT
1 GTATGGTTACCACCCT-GGTCAGATT-TTTTCATTCCAATTTGACATATGGTTACCACCCTAGTT
* * * * *
593535 AAATCTACCTCCTTCTTGTCTGACGTATAGCTACCACCCTAGTCAGATTCTTTTCATTTC-GATT
64 AAATCTACCTCTTTCCTGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTTCTGATT
593599 TGAC
129 TGAC
* * * *
593603 GTATGGTTACCACCCTGGTTAGATTTTTCTCAGTCCAATTTGACGTATTGTTACCACCCTAGTTA
1 GTATGGTTACCACCCTGGTCAGATTTTT-TCATTCCAATTTGACATATGGTTACCACCCTAGTTA
* * * * *
593668 AGTCTACCTCTTTCCTGTCTGACATATGGTTACCACCCTAGTTAGATTCTTTTCATTACCT--TT
65 AATCTACCTCTTTCCTGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATT-TCTGATT
*
593731 TGAG
129 TGAC
* * ** * * * * * *
593735 GTATGGTTACCAGCCTGGTCAAATTCACCTTC-TTCCTATCTAACATATGGCTACCACTCTGGTT
1 GTATGGTTACCACCCTGGTCAGATT--TTTTCATTCCAATTTGACATATGGTTACCACCCTAGTT
* ** * * * * * * * *
593799 AGATTCT-TTTCATTGC-GATTTGATGTATGGTTGCCACCCTAGTCAAGTCATCCTTT--TTCCT
64 A-AATCTACCTCTTTCCTG-TCTGACGTATGGTTACCACCCTAGTCAAAT--TCTTTTCATTTCT
*
593860 G-TTTGAT
125 GATTTGAC
* * * * * * *
593867 GTATAGTTACCACGCTAGTCAGATTCTTTTTAGTCCAATTTGACATATGGTTACAACCCTAGTCA
1 GTATGGTTACCACCCTGGTCAGATT-TTTTCATTCCAATTTGACATATGGTTACCACCCTAGTTA
** * * * * * *
593932 TGTTTGCCTCTTTTCTATCTGACGTATGGTTACCACCCTGGTTAAATTCTTTTCA-TTCTGATTT
65 AATCTACCTCTTTCCTGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTTCTGATTT
* *
593996 AAT
130 GAC
* ** * * *
593999 GTATGGTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGACATATAGTTACCACCCTGGTCA
1 GTATGGTTACCACCCTGGTCAGA-TTTTTTCATTCCAATTTGACATATGGTTACCACCCTAGTTA
* * * *
594064 AATCTACCTTCTTT-TTGTTTGACGTATGGTTACCACCGTGGTCAAATTCTTTTCA-TTCTGATT
65 AATCTACC-TCTTTCCTGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTTCTGATT
594127 TGAC
129 TGAC
594131 AAGTGATTAC
Statistics
Matches: 411, Mismatches: 98, Indels: 38
0.75 0.18 0.07
Matches are distributed among these distances:
130 5 0.01
131 15 0.04
132 368 0.90
133 17 0.04
134 6 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (132 bp):
GTATGGTTACCACCCTGGTCAGATTTTTTCATTCCAATTTGACATATGGTTACCACCCTAGTTAA
ATCTACCTCTTTCCTGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTTCTGATTTG
AC
Found at i:593860 original size:176 final size:175
Alignment explanation
Indices: 593604--594019 Score: 453
Period size: 176 Copynumber: 2.4 Consensus size: 175
593594 CGATTTGACG
* * * * *
593604 TATGGTTACCACCCTGGTTAGATT-TTTCTCAGTCCAATTTGACGTATTGTTACCACCCTAGTTA
1 TATGGTTACCACCCTGGTTAGATTCTTT-TCA-TTCGATTTGATGTATGGTTACCACCCTAGTCA
* * * *
593668 AGTCTACCTCTTTCCTGTCTGACATATGGTTACCACCCTAGTTAGATTCTTTTCATTACC-TTTT
64 AGTCTACCTCTTTCCTGTCTGACATATAGTTACCACCCTAGTCAGATTCTTTTCAGT-CCAATTT
** * * *
593732 GAGGTATGGTTACCAGCCTGGTCAAATTCACCT-TCTTCCTATCTAACA
128 GACATATGGTTACAACCCTAGTCAAATTCACCTCT-TTCCTATCTAACA
* * *
593780 TATGGCTACCACTCTGGTTAGATTCTTTTCATTGCGATTTGATGTATGGTTGCCACCCTAGTCAA
1 TATGGTTACCACCCTGGTTAGATTCTTTTCATT-CGATTTGATGTATGGTTACCACCCTAGTCAA
* * ** * *
593845 GTC-ATCCTTTTTCCTGTTTGATGTATAGTTACCACGCTAGTCAGATTCTTTTTAGTCCAATTTG
65 GTCTA-CCTCTTTCCTGTCTGACATATAGTTACCACCCTAGTCAGATTCTTTTCAGTCCAATTTG
** ** * * *
593909 ACATATGGTTACAACCCTAGTCATGTTTGCCTCTTTTCTATCTGACG
129 ACATATGGTTACAACCCTAGTCAAATTCACCTCTTTCCTATCTAACA
* *
593956 TATGGTTACCACCCTGGTTAAATTCTTTTCATTCTGATTTAATGTATGGTTACCACCCTAGTCA
1 TATGGTTACCACCCTGGTTAGATTCTTTTCATTC-GATTTGATGTATGGTTACCACCCTAGTCA
594020 GATTTTTTTC
Statistics
Matches: 199, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
175 5 0.03
176 190 0.95
177 4 0.02
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (175 bp):
TATGGTTACCACCCTGGTTAGATTCTTTTCATTCGATTTGATGTATGGTTACCACCCTAGTCAAG
TCTACCTCTTTCCTGTCTGACATATAGTTACCACCCTAGTCAGATTCTTTTCAGTCCAATTTGAC
ATATGGTTACAACCCTAGTCAAATTCACCTCTTTCCTATCTAACA
Found at i:594091 original size:88 final size:88
Alignment explanation
Indices: 593999--594197 Score: 276
Period size: 88 Copynumber: 2.3 Consensus size: 88
593989 CTGATTTAAT
* *
593999 GTATGGTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGACATA-T-AGTTACCACCCTGGT
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGACA-AGTGA-TTACCACCCTGGT
* *
594062 CAAATCTACCTTCTTTTTGTTTGAC
64 CAAATCTACCTCCTTCTTGTTTGAC
* * *
594087 GTATGGTTACCACCGTGGTCAAATTCTTTTCATTCTGATTTGACAAGTGATTACCACCTTGGTCA
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGACAAGTGATTACCACCCTGGTCA
*
594152 AATCTGCCTCCTTCTTGTTTGAC
66 AATCTACCTCCTTCTTGTTTGAC
* *
594175 ATATGGTTACCACCCTAATCAAA
1 GTATGGTTACCACCCTAGTCAAA
594198 CGATTTGCAT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
87 1 0.01
88 95 0.98
89 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (88 bp):
GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGACAAGTGATTACCACCCTGGTCA
AATCTACCTCCTTCTTGTTTGAC
Found at i:594141 original size:44 final size:43
Alignment explanation
Indices: 593961--594154 Score: 169
Period size: 44 Copynumber: 4.4 Consensus size: 43
593951 TGACGTATGG
* * ** *
593961 TTACCACCCTGGTTAAATTCTTTTCATTCTGATTTAATGTATGG
1 TTACCACCCTGGTCAAATTCTTTTCATTCTGATTTGA-CAATGA
* * *
594005 TTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGACATAT-A
1 TTACCACCCTGGTCAAATTCTTTTCATTCTGATTTGACA-ATGA
* * * * *
594048 GTTACCACCCTGGTCAAA-TCTACCTTCTTTTTG-TTTGACGTATGG
1 -TTACCACCCTGGTCAAATTCT--TTTCATTCTGATTTGAC-AATGA
*
594093 TTACCACCGTGGTCAAATTCTTTTCATTCTGATTTGACAAGTGA
1 TTACCACCCTGGTCAAATTCTTTTCATTCTGATTTGACAA-TGA
*
594137 TTACCACCTTGGTCAAAT
1 TTACCACCCTGGTCAAAT
594155 CTGCCTCCTT
Statistics
Matches: 118, Mismatches: 23, Indels: 18
0.74 0.14 0.11
Matches are distributed among these distances:
43 10 0.08
44 98 0.83
45 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (43 bp):
TTACCACCCTGGTCAAATTCTTTTCATTCTGATTTGACAATGA
Found at i:594197 original size:44 final size:43
Alignment explanation
Indices: 594037--594190 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 43
594027 TTCATTCTGA
* * *
594037 TTTGACATATAGTTACCACCCTGGTCAAATCTACCTTCTTTTTG
1 TTTGACATATGGTTACCACCCTGGTCAAATCT-CCTCCTTCTTG
* * ** *
594081 TTTGACGTATGGTTACCACCGTGGTCAAATTCTTTTCATTC-TG
1 TTTGACATATGGTTACCACCCTGGTCAAA-TCTCCTCCTTCTTG
* *
594124 ATTTGACA-AGTGATTACCACCTTGGTCAAATCTGCCTCCTTCTTG
1 -TTTGACATA-TGGTTACCACCCTGGTCAAATCT-CCTCCTTCTTG
594169 TTTGACATATGGTTACCACCCT
1 TTTGACATATGGTTACCACCCT
594191 AATCAAACGA
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.07
44 76 0.86
45 6 0.07
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (43 bp):
TTTGACATATGGTTACCACCCTGGTCAAATCTCCTCCTTCTTG
Found at i:594197 original size:132 final size:131
Alignment explanation
Indices: 593904--594197 Score: 324
Period size: 132 Copynumber: 2.2 Consensus size: 131
593894 TTTTAGTCCA
* ** * *
593904 ATTTGACATATGGTTACAACCCTAGTCATGTTTGCCTCTTTTCTATCTGACGTATGGTTACCACC
1 ATTTGACATATGGTTACCACCCTAGTCAAATCTACCTCTTTTCTATCTGACGTATGGTTACCACC
* * * * * ***
593969 CTGGTTAAATTCTTTTCATTCTGATTTAATGTATGGTTACCACCCTAGTCAGATTTTTTTCATTC
66 CTGGTCAAATTCTTTTCATTCTGATTTAAAG-ATGATTACCACCCTAGTCAAATCTGCCTCATTC
594034 TG
130 TG
* * * *
594036 ATTTGACATATAGTTACCACCCTGGTCAAATCTACCTTCTTTT-TGTTTGACGTATGGTTACCAC
1 ATTTGACATATGGTTACCACCCTAGTCAAATCTACC-TCTTTTCTATCTGACGTATGGTTACCAC
* * * *
594100 CGTGGTCAAATTCTTTTCATTCTGATTTGACAAG-TGATTACCACCTTGGTCAAATCTGCCTCCT
65 CCTGGTCAAATTCTTTTCATTCTGATTT-A-AAGATGATTACCACCCTAGTCAAATCTGCCTCAT
594164 TCTTG
128 TC-TG
*
594169 -TTTGACATATGGTTACCACCCTAATCAAA
1 ATTTGACATATGGTTACCACCCTAGTCAAA
594198 CGATTTGCAT
Statistics
Matches: 134, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
132 123 0.92
133 9 0.07
134 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (131 bp):
ATTTGACATATGGTTACCACCCTAGTCAAATCTACCTCTTTTCTATCTGACGTATGGTTACCACC
CTGGTCAAATTCTTTTCATTCTGATTTAAAGATGATTACCACCCTAGTCAAATCTGCCTCATTCT
G
Found at i:594421 original size:43 final size:42
Alignment explanation
Indices: 594374--594515 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
594364 TTATCTGCTC
*
594374 GTCGGCTTAGACCCGAGAGACTTTTTTCATCTTTTGTCTACCT
1 GTCGGCTCAGACCCGAGAGACTTTTTT-ATCTTTTGTCTACCT
* * *
594417 GTCGGCTCAGACCCGAGAGACTTTTTTACCTTTTGTCTGCCC
1 GTCGGCTCAGACCCGAGAGACTTTTTTATCTTTTGTCTACCT
* * *
594459 GTCGGCTCAGA-CCTATGCGACTTCTTTATCTTTTGTCTA-CT
1 GTCGGCTCAGACCCGA-GAGACTTTTTTATCTTTTGTCTACCT
594500 AGTCGGCTCAGACCCG
1 -GTCGGCTCAGACCCG
594516 GAAGAATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.05
42 53 0.62
43 28 0.33
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.35
Consensus pattern (42 bp):
GTCGGCTCAGACCCGAGAGACTTTTTTATCTTTTGTCTACCT
Found at i:594462 original size:85 final size:86
Alignment explanation
Indices: 594367--594600 Score: 230
Period size: 85 Copynumber: 2.7 Consensus size: 86
594357 TCATCCTTTA
* *
594367 TCTGCTCGTCGGCTTAGACCCGAGAGACTTTTTTCATCTTTTGTCTACCT-GTCGGCTCAGACCC
1 TCTGCCCGTCGGCTCAGACCCGAGAGACTTTTTTCATCTTTTGTCTA-CTAGTCGGCTCAGACCC
*
594431 -G-AGAGACTTTTTTA-CCTTTTG
65 GGAAGA-ACTTTTTTATCC-TTCG
* * *
594452 TCTGCCCGTCGGCTCAGA-CCTATGCGACTTCTTT-ATCTTTTGTCTACTAGTCGGCTCAGACCC
1 TCTGCCCGTCGGCTCAGACCCGA-GAGACTTTTTTCATCTTTTGTCTACTAGTCGGCTCAGACCC
*
594515 GGAAGAATTTTTTTATCCTTCG
65 GGAAGAACTTTTTTATCCTTCG
* * ** * * * * *
594537 TCTGCCCATCGGCTCAAACTTGAGAGACTTTCTTCATCCTTTATCTGCTCA-TCGGCTCAAACCC
1 TCTGCCCGTCGGCTCAGACCCGAGAGACTTTTTTCATCTTTTGTCTACT-AGTCGGCTCAGACCC
594601 TAAAAATTTC
Statistics
Matches: 122, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
83 2 0.02
84 29 0.24
85 61 0.50
86 29 0.24
87 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.35
Consensus pattern (86 bp):
TCTGCCCGTCGGCTCAGACCCGAGAGACTTTTTTCATCTTTTGTCTACTAGTCGGCTCAGACCCG
GAAGAACTTTTTTATCCTTCG
Found at i:594463 original size:42 final size:42
Alignment explanation
Indices: 594367--594567 Score: 174
Period size: 42 Copynumber: 4.7 Consensus size: 42
594357 TCATCCTTTA
* * *
594367 TCTGCTCGTCGGCTTAGACCCGAGAGACTTTTTTCATCTTTTG
1 TCTGCCCGTCGGCTCAGACCCGAGAGACTTTTTT-ACCTTTTG
* *
594410 TCTACCTGTCGGCTCAGACCCGAGAGACTTTTTTACCTTTTG
1 TCTGCCCGTCGGCTCAGACCCGAGAGACTTTTTTACCTTTTG
* * * *
594452 TCTGCCCGTCGGCTCAGA-CCTATGCGACTTCTTTATCTTTTG
1 TCTGCCCGTCGGCTCAGACCCGA-GAGACTTTTTTACCTTTTG
* ** * *
594494 TCTACTAGTCGGCTCAGACCCG-GAAGAATTTTTTTATCC-TTCG
1 TCTGCCCGTCGGCTCAGACCCGAG-AG-ACTTTTTTA-CCTTTTG
* * **
594537 TCTGCCCATCGGCTCAAACTTGAGAGACTTT
1 TCTGCCCGTCGGCTCAGACCCGAGAGACTTT
594568 CTTCATCCTT
Statistics
Matches: 124, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.03
42 59 0.48
43 59 0.48
44 2 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (42 bp):
TCTGCCCGTCGGCTCAGACCCGAGAGACTTTTTTACCTTTTG
Found at i:594626 original size:42 final size:42
Alignment explanation
Indices: 594480--594627 Score: 120
Period size: 43 Copynumber: 3.5 Consensus size: 42
594470 CCTATGCGAC
* * * *
594480 TTCTTTATCTTTTGTCTACT-AGTCGGCTCAGACCCGGAAGAAT
1 TTCTTTATCCTTTGTCTGCTCA-TCGGCTCAAACCC-TAAGAAT
* * * * *
594523 TTTTTTATCCTTCGTCTGCCCATCGGCTCAAA-CTTGAGAGACT
1 TTCTTTATCCTTTGTCTGCTCATCGGCTCAAACCCT-A-AGAAT
* * *
594566 TTCTTCATCCTTTATCTGCTCATCGGCTCAAACCCTAAAAAT
1 TTCTTTATCCTTTGTCTGCTCATCGGCTCAAACCCTAAGAAT
* *
594608 TTCTTAATCTTTTGTCTGCT
1 TTCTTTATCCTTTGTCTGCT
594628 TGTCGACTTA
Statistics
Matches: 81, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
42 22 0.27
43 56 0.69
44 3 0.04
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (42 bp):
TTCTTTATCCTTTGTCTGCTCATCGGCTCAAACCCTAAGAAT
Found at i:594708 original size:43 final size:43
Alignment explanation
Indices: 594607--594705 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
594597 ACCCTAAAAA
* * * *
594607 TTTCTTAATCTTTTGTCTGCTTGTCGACTTAGACCTGGGAGGC
1 TTTCTTAATCTTTTGTCTACCTATCGACTTAGACCTGGGAGAC
* * *
594650 TTTCTTTATCCTTTGTCTACCTATCGACTTAGACTTGGGAGAC
1 TTTCTTAATCTTTTGTCTACCTATCGACTTAGACCTGGGAGAC
*
594693 -TTCTTCATCTTTT
1 TTTCTTAATCTTTT
594706 TGTTTGCCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (43 bp):
TTTCTTAATCTTTTGTCTACCTATCGACTTAGACCTGGGAGAC
Found at i:594723 original size:128 final size:128
Alignment explanation
Indices: 594480--594723 Score: 274
Period size: 128 Copynumber: 1.9 Consensus size: 128
594470 CCTATGCGAC
* * * *
594480 TTCTTTATCTTTTGTCTACTAGTCGGCTCAGACCCGGAAGAATTTTTTTATCCTTCGTCTGCCCA
1 TTCTTAATCTTTTGTCTACTAGTCGACTCAGACCCGGAAGAATTTCTTTATCCTTCGTCTACCCA
* * *
594545 TCGGCTCAAACTTGAGAGACTTTCTTCATCCTTTATCTGCTCATCGGCTCAAACCCTAAAAAT
66 TCGACTCAAACTTGAGAGACTTTCTTCATCCTTTATCTGCCCATCAGCTCAAACCCTAAAAAT
* * * * * ** * *
594608 TTCTTAATCTTTTGTCTGCTTGTCGACTTAGACCTGGGAGGCTTTCTTTATCCTTTGTCTACCTA
1 TTCTTAATCTTTTGTCTACTAGTCGACTCAGACCCGGAAGAATTTCTTTATCCTTCGTCTACCCA
* * * * * *
594673 TCGACTTAGACTTGGGAGAC-TTCTTCATCTTTTTGTTTGCCCATCAGCTCA
66 TCGACTCAAACTTGAGAGACTTTCTTCATC-CTTTATCTGCCCATCAGCTCA
594724 GTCTCGAGAA
Statistics
Matches: 93, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
127 9 0.10
128 84 0.90
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (128 bp):
TTCTTAATCTTTTGTCTACTAGTCGACTCAGACCCGGAAGAATTTCTTTATCCTTCGTCTACCCA
TCGACTCAAACTTGAGAGACTTTCTTCATCCTTTATCTGCCCATCAGCTCAAACCCTAAAAAT
Found at i:595961 original size:20 final size:19
Alignment explanation
Indices: 595918--595970 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
595908 TTTTACCTAG
***
595918 ATGTATCGATACATTTTAA
1 ATGTATCGATACATGCAAA
595937 ATGTATCGATACATGCAAGA
1 ATGTATCGATACATGCAA-A
*
595957 ATGTATCAATACAT
1 ATGTATCGATACAT
595971 TTTTCAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACATGCAAA
Found at i:596959 original size:20 final size:20
Alignment explanation
Indices: 596921--596961 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
596911 TAGCCTTTGA
*
596921 TCATGCATTTTCACTATGTT
1 TCATGCATTTTAACTATGTT
596941 TCATGCATTTTTAAC-ATGTT
1 TCATGCA-TTTTAACTATGTT
596961 T
1 T
596962 AGCATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (20 bp):
TCATGCATTTTAACTATGTT
Found at i:602850 original size:13 final size:13
Alignment explanation
Indices: 602832--602856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
602822 CAGTTCATTA
602832 TGTATCGATACAT
1 TGTATCGATACAT
602845 TGTATCGATACA
1 TGTATCGATACA
602857 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:603580 original size:22 final size:22
Alignment explanation
Indices: 603550--603600 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
603540 GCTCTTGTTT
*
603550 AAAAA-TTTCTCTCCCTTGATA
1 AAAAATTTTCTCCCCCTTGATA
603571 AAAAATTTTCTCCCCCTTGATA
1 AAAAATTTTCTCCCCCTTGATA
603593 AAAAATTT
1 AAAAATTT
603601 ATTTTCAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (22 bp):
AAAAATTTTCTCCCCCTTGATA
Found at i:605483 original size:13 final size:13
Alignment explanation
Indices: 605465--605491 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
605455 ATAGTAACCC
605465 ATGTATCGATACA
1 ATGTATCGATACA
605478 ATGTATCGATACA
1 ATGTATCGATACA
605491 A
1 A
605492 AGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:611677 original size:13 final size:13
Alignment explanation
Indices: 611659--611683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
611649 CAGTTCATCA
611659 TGTATCGATACAT
1 TGTATCGATACAT
611672 TGTATCGATACA
1 TGTATCGATACA
611684 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:611792 original size:13 final size:13
Alignment explanation
Indices: 611774--611798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
611764 ATAATGAACA
611774 TGTATCGATACAT
1 TGTATCGATACAT
611787 TGTATCGATACA
1 TGTATCGATACA
611799 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:614891 original size:22 final size:20
Alignment explanation
Indices: 614866--614908 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
614856 AACCTATCTT
614866 AAAACCTACATTTCTTTTCCAA
1 AAAACCTACA-TT-TTTTCCAA
* *
614888 AAAACTTGCATTTTTTCCAA
1 AAAACCTACATTTTTTCCAA
614908 A
1 A
614909 GAAGTTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAACCTACATTTTTTCCAA
Found at i:614925 original size:19 final size:20
Alignment explanation
Indices: 614880--614922 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
614870 CCTACATTTC
614880 TTTTCCAAAAAACTTGCATT
1 TTTTCCAAAAAACTTGCATT
* *
614900 TTTTCCAAAGAAGTTGCATT
1 TTTTCCAAAAAACTTGCATT
614920 TTT
1 TTT
614923 CCACTGCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (20 bp):
TTTTCCAAAAAACTTGCATT
Found at i:616433 original size:13 final size:13
Alignment explanation
Indices: 616415--616441 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
616405 ACATTTTGCT
616415 TTGTATCGATACA
1 TTGTATCGATACA
616428 TTGTATCGATACA
1 TTGTATCGATACA
616441 T
1 T
616442 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:616450 original size:19 final size:19
Alignment explanation
Indices: 616426--616482 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
616416 TGTATCGATA
*
616426 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAG
*
616445 CATTGTATCGACACATGAAG
1 CATTGTATCGATACATG-AG
* *
616465 AATTCTATCGATACATGA
1 CATTGTATCGATACATGA
616483 AACTGGTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATTGTATCGATACATGAG
Found at i:618257 original size:169 final size:168
Alignment explanation
Indices: 617967--618301 Score: 424
Period size: 169 Copynumber: 2.0 Consensus size: 168
617957 TCTAACCCTG
* ** * *
617967 TCTTCATAAGAAAACTCAAATTTTCTCTTTGTATAATTTTATCTTTAGGAAAACTGCAACCTTAC
1 TCTTCATAAGAAAAATCAAACATTCTCTTTGTATAATTTTATCTTTAGGAAAACTCCAACCCTAC
** * * *
618032 TAATATGAGAGATACTCTAACCCCATTCTTAAAAAAAAATCAATTTTACTCTTTGTTCCTAAGTA
66 TAATAAAAGAGATACTCTAACCCCATTCTTAAAAAAAAATCAAATTTACACTTTGTT-CTAAATA
*
618097 TTTTCATAATCTTCAACTTTGGGGAAACTCCAACCTCGT
130 TTTTCATAATCTTCAACTTTGAGGAAACTCCAACCTCGT
618136 TCTTCATAAGAAAAATCAAACATTCTCTTTGTATAATTTTATCTTTAAGG-AAACTCCAACCCTA
1 TCTTCATAAGAAAAATCAAACATTCTCTTTGTATAATTTTATCTTT-AGGAAAACTCCAACCCTA
* * ** * * * * *
618200 CTAGTTCAAAAG-GATACTTTAACCCTGTTCTT-CAAGAAACTTAAATTTACACTTTGTTTTAAA
65 CTA-AT-AAAAGAGATACTCTAACCCCATTCTTAAAAAAAAATCAAATTTACACTTTGTTCTAAA
*
618263 TATTTTCATAATCTTCGACTTTGAGGAAACTCCAACCTC
128 TATTTTCATAATCTTCAACTTTGAGGAAACTCCAACCTC
618302 ACTACTTTAA
Statistics
Matches: 142, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
168 40 0.28
169 78 0.55
170 21 0.15
171 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (168 bp):
TCTTCATAAGAAAAATCAAACATTCTCTTTGTATAATTTTATCTTTAGGAAAACTCCAACCCTAC
TAATAAAAGAGATACTCTAACCCCATTCTTAAAAAAAAATCAAATTTACACTTTGTTCTAAATAT
TTTCATAATCTTCAACTTTGAGGAAACTCCAACCTCGT
Found at i:621592 original size:52 final size:52
Alignment explanation
Indices: 621446--621574 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
621436 CGAAATATGA
621446 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
621498 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
621550 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
621575 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:621609 original size:21 final size:21
Alignment explanation
Indices: 621583--621639 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
621573 CAAAGATCAG
621583 TGTATCGATACATTTGAGTAA
1 TGTATCGATACATTTGAGTAA
621604 TGTATCGATACATTTGAGTAA
1 TGTATCGATACATTTGAGTAA
621625 TGTATCGATACATTT
1 TGTATCGATACATTT
621640 TCTTGGCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTGAGTAA
Found at i:622243 original size:39 final size:39
Alignment explanation
Indices: 622189--622440 Score: 119
Period size: 39 Copynumber: 5.9 Consensus size: 39
622179 GTGATAAAGA
* * *
622189 TGCCAATATGCTGATTCACGGTCAGCGATATTGGACTTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTG
*
622228 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT---------G
* * * * * *
622276 TGCCAATACG-TCGATTCAAAGCCAGTGATATTGGGCTTA
1 TGCCAATATGCT-GATTCAAGGCCAGCGACATTGGACTTG
* * *
622315 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGCCGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----T----G
* * *
622364 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----G
* *
622407 TGTCAATATGCTGATTCAAGGCCAGCGATATTGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGG
622441 GTTTTAAAGA
Statistics
Matches: 161, Mismatches: 31, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
39 61 0.38
40 2 0.01
43 34 0.21
45 1 0.01
47 1 0.01
48 32 0.20
49 30 0.19
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTG
Found at i:622437 original size:22 final size:22
Alignment explanation
Indices: 622369--622437 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
622359 GCCGGTGCCA
*
622369 ATATGCTGATTCAAGGCCAACG
1 ATATGCTGATTCAAGGCCAGCG
* * * *
622391 ATAT-CGGACTTAAAGG--TGTCA
1 ATATGCTGA-TTCAAGGCCAG-CG
622412 ATATGCTGATTCAAGGCCAGCG
1 ATATGCTGATTCAAGGCCAGCG
622434 ATAT
1 ATAT
622438 TGGGTTTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
21 14 0.42
22 18 0.55
23 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
ATATGCTGATTCAAGGCCAGCG
Found at i:622486 original size:93 final size:89
Alignment explanation
Indices: 622181--622496 Score: 372
Period size: 87 Copynumber: 3.5 Consensus size: 89
622171 TGAGAAAAGT
* * *
622181 GATAAAGATGCCAATATGCTGATTCACGGTCAGCGATATTGGACTT-GTGCCAATGTGCTGATTC
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGTGCCAATGTGCTGATTC
*
622245 AAGGCCAGCGACATTGGACTTAAA
66 AAGGCCAGCGACATTGGTCTTAAA
* * * * *
622269 GA-CAAGGTGCCAATACG-TCGATTCAAAGCCAGTGATATTGGGCTTA-TGCCAATGTGCTGATT
1 GATAAAGGTGCCAATATGCT-GATTCAAGGCCAGCGATATTGGACTTAGTGCCAATGTGCTGATT
*
622331 CAAGGCCAGCAACATTGGTCTTAAA
65 CAAGGCCAGCGACATTGGTCTTAAA
*** * * * *
622356 GATGCCGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGGTGTCAATATGCTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-GTGCCAATGTGCTGA
* *
622421 TTCAAGGCCAGCGATATTGGGTTTTAAA
63 TTCAAGGCCAGCGACATT-GGTCTTAAA
622449 GATAAAGGTGCCAATATGCT-AGTTCAAGGCCAGCGATATTGGACTTAG
1 GATAAAGGTGCCAATATGCTGA-TTCAAGGCCAGCGATATTGGACTTAG
622497 AAGAAGACGC
Statistics
Matches: 189, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
86 1 0.01
87 74 0.39
88 34 0.18
89 1 0.01
90 2 0.01
91 1 0.01
92 29 0.15
93 47 0.25
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (89 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGTGCCAATGTGCTGATTC
AAGGCCAGCGACATTGGTCTTAAA
Found at i:622590 original size:57 final size:57
Alignment explanation
Indices: 622517--622670 Score: 272
Period size: 57 Copynumber: 2.7 Consensus size: 57
622507 CACCATCTTG
*
622517 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGATTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGATTACCACTGACT
* * *
622574 TGTGGGCTTTGAAAAAGATGCCACTGACTTATGGGCTTTTGAAGGTTACCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGATTACCACTGACT
622631 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTT
622671 AAAAGGTGAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 91 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (57 bp):
TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGATTACCACTGACT
Found at i:622608 original size:29 final size:28
Alignment explanation
Indices: 622517--622675 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 28
622507 CACCATCTTG
622517 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTT-GAAAAGATGCCACTGACT
622546 TGTGGGCTTTTG--AAGATTGCCACTGACT
1 TGTGGGC-TTTGAAAAGA-TGCCACTGACT
622574 TGTGGGCTTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAAGATGCCACTGACT
* * * *
622603 TATGGGCTTTTG-AAGGTTACCACTGACT
1 TGTGGGC-TTTGAAAAGATGCCACTGACT
622631 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTT-GAAAAGATGCCACTGACT
*
622660 TGTGGGCTTTTAAAAG
1 TGTGGGCTTTGAAAAG
622676 GTGAGGAATG
Statistics
Matches: 113, Mismatches: 9, Indels: 17
0.81 0.06 0.12
Matches are distributed among these distances:
27 11 0.10
28 43 0.38
29 48 0.42
30 11 0.10
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:624114 original size:1 final size:1
Alignment explanation
Indices: 624110--624190 Score: 54
Period size: 1 Copynumber: 81.0 Consensus size: 1
624100 TTTGTTGTTG
* * * * * * * * * *
624110 TTTTTTTTGTTTATTTTTTTTGTTTTTTTTGTTTTCTTTGTTTTTTGTTTTTTTGTTTGTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
624175 TTTTCTTCTTTTTTTT
1 TTTTTTTTTTTTTTTT
624191 CTTCTGTCTT
Statistics
Matches: 56, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.85
Consensus pattern (1 bp):
T
Found at i:624115 original size:15 final size:14
Alignment explanation
Indices: 624097--624176 Score: 69
Period size: 13 Copynumber: 5.8 Consensus size: 14
624087 CATTCGGACC
624097 TTTTTTGTTGTTGTT
1 TTTTTTGTT-TTGTT
*
624112 TTTTTTG-TTTATT
1 TTTTTTGTTTTGTT
624125 TTTTTTGTTTT-TT
1 TTTTTTGTTTTGTT
*
624138 TTGTTTT-CTTTGTT
1 TT-TTTTGTTTTGTT
*
624152 TTTTGTTTTTTTG-T
1 TTTT-TTGTTTTGTT
*
624166 TTGTTTGTTTT
1 TTTTTTGTTTT
624177 TTCTTCTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
13 26 0.47
14 18 0.33
15 11 0.20
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (14 bp):
TTTTTTGTTTTGTT
Found at i:624121 original size:9 final size:9
Alignment explanation
Indices: 624098--624190 Score: 79
Period size: 9 Copynumber: 10.6 Consensus size: 9
624088 ATTCGGACCT
624098 TTTTTGTTGT
1 TTTTTGTT-T
624108 TGTTTT-TTT
1 T-TTTTGTTT
* *
624117 TGTTTATTT
1 TTTTTGTTT
624126 TTTTTGTTT
1 TTTTTGTTT
624135 TTTTTGTTT
1 TTTTTGTTT
*
624144 TCTTTG--T
1 TTTTTGTTT
624151 TTTTTG-TT
1 TTTTTGTTT
624159 TTTTTG-TT
1 TTTTTGTTT
*
624167 TGTTTGTTT
1 TTTTTGTTT
*
624176 TTTCTTCTTT
1 TTT-TTGTTT
624186 TTTTT
1 TTTTT
624191 CTTCTGTCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
7 6 0.09
8 17 0.24
9 32 0.46
10 11 0.16
11 4 0.06
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:624127 original size:25 final size:23
Alignment explanation
Indices: 624097--624176 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 23
624087 CATTCGGACC
624097 TTTTTTGTTGTTGTTTTTTTTGTT
1 TTTTTTGTT-TTGTTTTTTTTGTT
*
624121 TATTTT-TTTTGTTTTTTTTGTT
1 TTTTTTGTTTTGTTTTTTTTGTT
* *
624143 TTCTTTGTTTTTTGTTTTTTTG-T
1 TTTTTTGTTTTGT-TTTTTTTGTT
*
624166 TTGTTTGTTTT
1 TTTTTTGTTTT
624177 TTCTTCTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.37
23 18 0.37
24 13 0.27
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (23 bp):
TTTTTTGTTTTGTTTTTTTTGTT
Found at i:624135 original size:22 final size:21
Alignment explanation
Indices: 624097--624190 Score: 84
Period size: 22 Copynumber: 4.4 Consensus size: 21
624087 CATTCGGACC
*
624097 TTTTTTGTTGTTGTTTTTTTTG
1 TTTTTT-TTTTTGTTTTTTTTG
624119 TTTATTTTTTTTGTTTTTTTTG
1 TTT-TTTTTTTTGTTTTTTTTG
* *
624141 TTTTCTTTGTTT-TTTGTTTT-
1 TTTT-TTTTTTTGTTTTTTTTG
* * *
624161 TTTGTTTGTTTGTTTTTTCTTC
1 TTTTTTTTTTTGTTTTTT-TTG
624183 TTTTTTTT
1 TTTTTTTT
624191 CTTCTGTCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.12
20 8 0.13
21 10 0.17
22 32 0.53
23 3 0.05
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTTTGTTTTTTTTG
Found at i:624154 original size:37 final size:35
Alignment explanation
Indices: 624097--624190 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 35
624087 CATTCGGACC
* *
624097 TTTTTTGTTGTTGTTTTTTTTGTTTATTTTTTTTGTT
1 TTTTTTGTT-TTCTTTTTTTTGTTT-TTTTGTTTGTT
624134 TTTTTTGTTTTCTTTGTTTTTTGTTTTTTTGTTTGTT
1 TTTTTTGTTTTC-TT-TTTTTTGTTTTTTTGTTTGTT
*
624171 TGTTTTT-TCTTCTTTTTTTT
1 T-TTTTTGTTTTCTTTTTTTT
624191 CTTCTGTCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.12
36 4 0.08
37 26 0.51
38 15 0.29
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (35 bp):
TTTTTTGTTTTCTTTTTTTTGTTTTTTTGTTTGTT
Found at i:624177 original size:15 final size:14
Alignment explanation
Indices: 624097--624178 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 14
624087 CATTCGGACC
624097 TTTTTTGTTGTTGTT-
1 TTTTTTGTT-TT-TTG
624112 TTTTTTGTTTATTT-
1 TTTTTTGTTT-TTTG
*
624126 TTTTTGTTTTTTTTG
1 TTTTT-TGTTTTTTG
624141 TTTTCTTTGTTTTTTG
1 -TTT-TTTGTTTTTTG
624157 TTTTTTTGTTTGTTTG
1 -TTTTTTGTTT-TTTG
624173 TTTTTT
1 TTTTTT
624179 CTTCTTTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
14 11 0.19
15 27 0.46
16 19 0.32
17 2 0.03
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (14 bp):
TTTTTTGTTTTTTG
Found at i:638132 original size:19 final size:18
Alignment explanation
Indices: 638108--638175 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
638098 CAGTAGCTAA
638108 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
638127 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
638142 TTA--TATCGATACAACAC
1 TTATGTATCGATACAA-AC
638159 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
638176 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.21
15 3 0.07
16 2 0.05
17 3 0.07
18 1 0.02
19 25 0.58
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:638154 original size:32 final size:32
Alignment explanation
Indices: 638113--638173 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
638103 GCTAATTATG
*
638113 TATCGATACAATACTTATGTATCGATACATTA
1 TATCGATACAACACTTATGTATCGATACATTA
638145 TATCGATACAACACTTATGTATCGATACA
1 TATCGATACAACACTTATGTATCGATACA
638174 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (32 bp):
TATCGATACAACACTTATGTATCGATACATTA
Found at i:639469 original size:52 final size:52
Alignment explanation
Indices: 639321--639449 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
639311 CGAAATATGA
* *
639321 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
* **
639373 AAATTTTCCTATATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
639425 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
639450 AAGATTAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
Found at i:639476 original size:13 final size:13
Alignment explanation
Indices: 639458--639482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
639448 CAAAGATTAG
639458 TGTATCGATACAA
1 TGTATCGATACAA
639471 TGTATCGATACA
1 TGTATCGATACA
639483 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:639562 original size:19 final size:19
Alignment explanation
Indices: 639538--639618 Score: 93
Period size: 19 Copynumber: 4.6 Consensus size: 19
639528 GATACATTGC
639538 ATCGATACAAAACTTATGT
1 ATCGATACAAAACTTATGT
639557 ATCGATAC---A--T-TGT
1 ATCGATACAAAACTTATGT
*
639570 ATCGATACAACACTTATGT
1 ATCGATACAAAACTTATGT
* *
639589 ATTGATACAACACTTATGT
1 ATCGATACAAAACTTATGT
639608 ATCGATACAAA
1 ATCGATACAAA
639619 TTATTGAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 11 0.21
14 1 0.02
16 2 0.04
18 1 0.02
19 38 0.72
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
ATCGATACAAAACTTATGT
Found at i:639568 original size:32 final size:32
Alignment explanation
Indices: 639527--639597 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
639517 AGCTTTATAG
639527 CGATACATTGCATCGATACAAAACTTATGTAT
1 CGATACATTGCATCGATACAAAACTTATGTAT
* *
639559 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGCATCGATACAAAACTTATGTAT
*
639591 TGATACA
1 CGATACA
639598 ACACTTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGCATCGATACAAAACTTATGTAT
Found at i:639572 original size:13 final size:13
Alignment explanation
Indices: 639554--639578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
639544 ACAAAACTTA
639554 TGTATCGATACAT
1 TGTATCGATACAT
639567 TGTATCGATACA
1 TGTATCGATACA
639579 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:640584 original size:13 final size:13
Alignment explanation
Indices: 640566--640592 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
640556 CAAGGCAAAT
640566 TTGTATCAATACA
1 TTGTATCAATACA
640579 TTGTATCAATACA
1 TTGTATCAATACA
640592 T
1 T
640593 GATGAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:646963 original size:20 final size:20
Alignment explanation
Indices: 646925--646964 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
646915 TTACAAATTT
646925 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
646946 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
646965 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:649356 original size:32 final size:33
Alignment explanation
Indices: 649298--649360 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
649288 CACCCAGATG
*
649298 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
649331 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
649361 GGACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:649371 original size:20 final size:19
Alignment explanation
Indices: 649325--649381 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
649315 TTGTATCGAT
* *
649325 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
649344 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
649363 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
649382 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:656152 original size:171 final size:171
Alignment explanation
Indices: 655867--656207 Score: 576
Period size: 171 Copynumber: 2.0 Consensus size: 171
655857 CCTTTATGTT
* *
655867 TGATTTCTATAACCTACTTCTGGACTTTCATAGCAAGGCTAAAGACTATCCATATATGTCAAATA
1 TGATTTCTATAACCTACTTCCGGACTTTCATAACAAGGCTAAAGACTATCCATATATGTCAAATA
*
655932 CAAGGAAATAACAAAAATGCTAAGCACCTCAACCTAGAACATCAAACACCAAATTAGATGATATG
66 CAAGGAAATAACAAAAATGCTAAGCACCTCAACCTAGAACATCAAACACCAAATTAAATGATATG
* *
655997 CTTCGAAGTCACAGGAATAACTTGTTTTTATTGCTTTTATG
131 CTTCGAAGTCACAGGAACAACTCGTTTTTATTGCTTTTATG
* *
656038 TGATTTCTATAACCTACTTCCGGACTTTCATAACGAGGCTAAAGACTATGCATATATGTCAAATA
1 TGATTTCTATAACCTACTTCCGGACTTTCATAACAAGGCTAAAGACTATCCATATATGTCAAATA
* *
656103 CAAGGAAA-AACCAAAAATGCTAAGGACCTCAACCTTGAACATCAAACACCAAATTAAATGATAT
66 CAAGGAAATAA-CAAAAATGCTAAGCACCTCAACCTAGAACATCAAACACCAAATTAAATGATAT
*
656167 GCTTCGAAGTCACATGAACAACTCGTTTTTATTGCTTTTAT
130 GCTTCGAAGTCACAGGAACAACTCGTTTTTATTGCTTTTAT
656208 TTATATTCAA
Statistics
Matches: 159, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
170 2 0.01
171 157 0.99
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (171 bp):
TGATTTCTATAACCTACTTCCGGACTTTCATAACAAGGCTAAAGACTATCCATATATGTCAAATA
CAAGGAAATAACAAAAATGCTAAGCACCTCAACCTAGAACATCAAACACCAAATTAAATGATATG
CTTCGAAGTCACAGGAACAACTCGTTTTTATTGCTTTTATG
Found at i:658030 original size:20 final size:21
Alignment explanation
Indices: 657986--658032 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
657976 TTCTATAATT
657986 TGTATCGATACAACAAGCTAA
1 TGTATCGATACAACAAGCTAA
658007 TGTATCGATACAA-AAG-TGAA
1 TGTATCGATACAACAAGCT-AA
658027 TGTATC
1 TGTATC
658033 AACAGTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 13 0.52
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACAACAAGCTAA
Found at i:658285 original size:20 final size:20
Alignment explanation
Indices: 658260--658300 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
658250 CTACATTCAA
658260 TGCCCAACTCAAATGAGTTT
1 TGCCCAACTCAAATGAGTTT
*
658280 TGCCCAGCTCAAATGAGTTT
1 TGCCCAACTCAAATGAGTTT
658300 T
1 T
658301 TTGCATCGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (20 bp):
TGCCCAACTCAAATGAGTTT
Found at i:660720 original size:75 final size:76
Alignment explanation
Indices: 660571--660733 Score: 184
Period size: 75 Copynumber: 2.2 Consensus size: 76
660561 TTTCGAGGGA
* * * * ** *
660571 ATACTTCAACCCCGCTCTTCGAAATTTGTCGAGATTTGAACTATTTTTTTATCAAAATTATTTGT
1 ATACTCCAACCCCACTCTTCAAAATTTGTCAAGATTTGAACTATTCCTTTATCAAAATTATTTAT
660636 CATCCAT-GGG
66 CATCCATGGGG
* * * *
660646 ATACTCCAACCCCACTTTTCAAAATTTGTCAAGATTTGACCTCTTCCTTTGTCAAAATTATTTAT
1 ATACTCCAACCCCACTCTTCAAAATTTGTCAAGATTTGAACTATTCCTTTATCAAAATTATTTAT
* **
660711 TATTTATGGGG
66 CATCCATGGGG
*
660722 ATACTCCGACCC
1 ATACTCCAACCC
660734 ACATCTTTCC
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
75 58 0.81
76 14 0.19
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (76 bp):
ATACTCCAACCCCACTCTTCAAAATTTGTCAAGATTTGAACTATTCCTTTATCAAAATTATTTAT
CATCCATGGGG
Found at i:661857 original size:20 final size:21
Alignment explanation
Indices: 661832--661886 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
661822 GCAATACGGT
* *
661832 AATGTATCGATACATAAGT-G
1 AATGTATCGATACATAACTAA
* *
661852 AATGTATCAATACATGACTAA
1 AATGTATCGATACATAACTAA
661873 AATGTATCGATACA
1 AATGTATCGATACA
661887 GTTCAAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATAACTAA
Found at i:666462 original size:20 final size:20
Alignment explanation
Indices: 666439--666492 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
666429 ATTATAAGCA
666439 ATGTATCGATACAAT-TCAT
1 ATGTATCGATACAATGTCAT
*
666458 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAATGTCAT
666479 ATGTATCGATACAA
1 ATGTATCGATACAA
666493 ACAGTGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTCAT
Found at i:666566 original size:19 final size:19
Alignment explanation
Indices: 666521--666576 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
666511 CTGCCAGTTT
**
666521 CATGTATCGATACAACTGTC
1 CATGTATCGATACAA-TGGA
666541 CATGTATCGATACAATGGA
1 CATGTATCGATACAATGGA
*
666560 TATGTATCGATACAATG
1 CATGTATCGATACAATG
666577 TATTGATCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGGA
Found at i:667211 original size:22 final size:22
Alignment explanation
Indices: 667171--667212 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
667161 AGATAAACAT
*
667171 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCATTTATCAAAGC
* *
667193 ATTTCTCCCTATTTGTCAAA
1 ATTTCTCCCCATTTATCAAA
667213 TCTTAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.31, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTTCTCCCCATTTATCAAAGC
Found at i:675296 original size:20 final size:20
Alignment explanation
Indices: 675271--675322 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
675261 GTTATAAGTA
675271 ATGTATCGATACAAT-TCAT
1 ATGTATCGATACAATGTCAT
*
675290 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAATGTCAT
675311 ATGTATCGATAC
1 ATGTATCGATAC
675323 TAATAGTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTCAT
Found at i:680032 original size:20 final size:22
Alignment explanation
Indices: 680005--680062 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
679995 TCAAAAACCC
680005 AGAATGTATCGATACAA-TG-A
1 AGAATGTATCGATACAATTGTA
*
680025 ATAATGTATCGATACAATTGTA
1 AGAATGTATCGATACAATTGTA
*
680047 AGCATGTATCGATACA
1 AGAATGTATCGATACA
680063 TTTCCTTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
22 15 0.45
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (22 bp):
AGAATGTATCGATACAATTGTA
Found at i:682534 original size:52 final size:51
Alignment explanation
Indices: 682410--682546 Score: 177
Period size: 52 Copynumber: 2.7 Consensus size: 51
682400 TGGAATGAAT
* * * *
682410 ATGTATTGATACATTTTTTATTGTATCGATACATTCTAGGTTCTAACCTAA
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTAGGTTCTAACCTAA
* * *
682461 ATGTATCGATATATTCATCAATGTATCGATACATTCTAGGGTTTTGAA-CTAA
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTA-GGTTCT-AACCTAA
*
682513 ATGTATCGATACATTCTTCAATGTATCAATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACAT
682547 GCAGGCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
51 32 0.43
52 40 0.54
53 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (51 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTAGGTTCTAACCTAA
Found at i:688178 original size:25 final size:25
Alignment explanation
Indices: 688139--688188 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
688129 CTTATTTTAT
*
688139 TTTCTTTCGTAGTTATAGATTAGCA
1 TTTCTTTCATAGTTATAGATTAGCA
*
688164 TTTCTTTCATTGTTATAGATTAGCA
1 TTTCTTTCATAGTTATAGATTAGCA
688189 AGAAGGAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (25 bp):
TTTCTTTCATAGTTATAGATTAGCA
Found at i:703818 original size:52 final size:52
Alignment explanation
Indices: 703731--703859 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
703721 CGAAATATGA
*
703731 AAATTTACCTGCATGTATCGATACACTATTAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACACTATTAAATGTATCGATACATCTGGGC
*
703783 AAATTTGCCTGCATGTATCGATACA-TTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACACTATTA-AATGTATCGATACATCTGGGC
*
703835 AAATTTGCCTGCATGTAACGATACA
1 AAATTTGCCTGCATGTATCGATACA
703860 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
51 4 0.05
52 69 0.95
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACACTATTAAATGTATCGATACATCTGGGC
Found at i:703872 original size:52 final size:52
Alignment explanation
Indices: 703731--703880 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 52
703721 CGAAATATGA
* * **
703731 AAATTTACCTGCATGTATCGATACACTATTA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTAACGATACA-TAAGATAATGTATCGATACATCTGGGC
* ***
703783 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTAACGATACATAAGATAATGTATCGATACATCTGGGC
*
703835 AAATTTGCCTGCATGTAACGATACA-AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTAACGATACATAAGAT-AATGTATCGATACAT
703881 TTTTTTGGCA
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 6 0.07
52 83 0.93
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTAACGATACATAAGATAATGTATCGATACATCTGGGC
Found at i:704277 original size:13 final size:13
Alignment explanation
Indices: 704256--704286 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
704246 CGATACATGG
*
704256 TACAATGTATCGA
1 TACATTGTATCGA
704269 TACATTGTATCGA
1 TACATTGTATCGA
704282 TACAT
1 TACAT
704287 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:704282 original size:33 final size:32
Alignment explanation
Indices: 704240--704306 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
704230 CTATCACTAT
704240 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
704273 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
704306 T
1 T
704307 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:706501 original size:3 final size:3
Alignment explanation
Indices: 706493--706545 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
706483 TATATTCTAC
* * *
706493 ATT ATT ATT ATT ATC ATC ATC ATT AATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
706539 ATT ATT A
1 ATT ATT A
706546 CATATGTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:706895 original size:25 final size:25
Alignment explanation
Indices: 706866--706942 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
706856 ATTTCATATT
706866 TAAAAATTGAATTATTATTTAAAAA
1 TAAAAATTGAATTATTATTTAAAAA
** * * *
706891 TAAAAA-T-AAAAAGTTATTTTATAT
1 TAAAAATTGAATTA-TTATTTAAAAA
* *
706915 TTAAAATTGAATTACTATTTAAAAA
1 TAAAAATTGAATTATTATTTAAAAA
706940 TAA
1 TAA
706943 TAAAAAATAA
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
23 3 0.08
24 14 0.39
25 16 0.44
26 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (25 bp):
TAAAAATTGAATTATTATTTAAAAA
Found at i:706934 original size:49 final size:48
Alignment explanation
Indices: 706853--707260 Score: 262
Period size: 49 Copynumber: 8.0 Consensus size: 48
706843 CAAAGCATGT
* *
706853 AATATTTCATATTTAAAAATTGAATTATTATTTAAAAATAAAAA-TAAAA
1 AATATTTTATA-TT-AAAATTGAATTACTATTTAAAAATAAAAATTAAAA
*
706902 AGTTATTTTATATTTAAAATTGAATTACTATTTAAAAATAATAAA--AAATA
1 A-ATATTTTATA-TTAAAATTGAATTACTATTTAAAAATAA-AAATTAAA-A
* * * * *
706952 AAAAATTTATATTAAATACTAAATTACTATTAAAAATAATAAAAATTAAAA
1 AATATTTTATATTAAA-ATTGAATTACTATT-TAAA-AATAAAAATTAAAA
*
707003 ATATATTTTATATTAAATTTTGAATTACTATTTAAAAAATAATAAAATTTTCAAAA
1 A-ATATTTTATATTAAA-ATTGAATTACTATTT-AAAAAT-A-AAAA--TT-AAAA
**
707059 AATATTTTATATTATAGCTTGAATTACTATTTAAAAATAAATAA--AAAA
1 AATATTTTATATTA-AAATTGAATTACTATTTAAAAATAAA-AATTAAAA
* ** *
707107 TAAAAAATTATATTAAATCTTGAATTACTATTTAAAACATAATAAAATTAAAA
1 -AATATTTTATATTAAA-ATTGAATTACTATTTAAAA-AT-A-AAAATTAAAA
* *
707160 AATATTTCATATTAAAA-T-AA-TA-T-TTAAAAATAATAAAAAATTAAAA
1 AATATTTTATATTAAAATTGAATTACTATT-TAAA-AAT-AAAAATTAAAA
* * *
707206 ACATAATTTATATT-AAATCTCTAATTATTATTTAAAAATAATAAAAATTAAAA
1 A-ATATTTTATATTAAAAT-T-GAATTACTATTT--AAA-AATAAAAATTAAAA
707259 AA
1 AA
707261 CATATTTACA
Statistics
Matches: 293, Mismatches: 30, Indels: 69
0.75 0.08 0.18
Matches are distributed among these distances:
46 16 0.05
47 18 0.06
48 14 0.05
49 80 0.27
50 27 0.09
51 15 0.05
52 50 0.17
53 25 0.09
54 13 0.04
55 29 0.10
56 6 0.02
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (48 bp):
AATATTTTATATTAAAATTGAATTACTATTTAAAAATAAAAATTAAAA
Found at i:706994 original size:20 final size:20
Alignment explanation
Indices: 706945--706994 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
706935 AAAAATAATA
*
706945 AAAAATAAAAAATTTATATT
1 AAAAATAATAAATTTATATT
*
706965 --AAATACTAAA-TTACTATT
1 AAAAATAATAAATTTA-TATT
706983 AAAAATAATAAA
1 AAAAATAATAAA
706995 AATTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
20 9 0.38
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATAATAAATTTATATT
Found at i:707010 original size:101 final size:101
Alignment explanation
Indices: 706889--707260 Score: 350
Period size: 101 Copynumber: 3.7 Consensus size: 101
706879 ATTATTTAAA
706889 AATAAAAA-TAAAAAGT-TATTTTATATTTAAA-ATTGAATTACTATTTAAAAATAATAAAA-AA
1 AATAAAAATTAAAAA-TATATTTTATA-TTAAATATTGAATTACTATTTAAAAATAATAAAATAA
706950 TAAAAAATTTATATTAAATACTAAATTACTATTAAAAAT
64 TAAAAAATTTATATTAAATACT-AATTACTATTAAAAAT
* **
706989 AATAAAAATTAAAAATATATTTTATATTAAATTTTGAATTACTATTTAAAAAATAATAAAATTTT
1 AATAAAAATTAAAAATATATTTTATATTAAATATTGAATTACTATTT-AAAAATAATAAAATAAT
707054 CAAAAAATATTTTATATT--ATAGCTTGAATTACTATTTAAAAAT
65 --AAAAA-A-TTTATATTAAATA-C-T-AATTACTA-TTAAAAAT
* *
707097 AAATAAAAAAT-AAAA-A-A--TTATATTAAATCTTGAATTACTATTTAAAACATAATAAAATTA
1 -AATAAAAATTAAAAATATATTTTATATTAAATATTGAATTACTATTTAAAA-ATAATAAAA-TA
*
707157 A-AAAATATTTCATATTAAA-A-TAA-TA-T-TTAAAAAT
63 ATAAAAAATTT-ATATTAAATACTAATTACTATTAAAAAT
* * * * *
707191 AATAAAAAATTAAAAACATAATTTATATTAAATCTCT-AATTATTATTTAAAAATAATAAAA-AT
1 AAT-AAAAATTAAAAATATATTTTATATTAAATAT-TGAATTACTATTTAAAAATAATAAAATAA
707254 TAAAAAA
64 TAAAAAA
707261 CATATTTACA
Statistics
Matches: 233, Mismatches: 13, Indels: 55
0.77 0.04 0.18
Matches are distributed among these distances:
93 3 0.01
94 14 0.06
95 4 0.02
96 3 0.01
97 8 0.03
98 11 0.05
99 28 0.12
100 18 0.08
101 35 0.15
102 18 0.08
103 6 0.03
104 34 0.15
105 9 0.04
106 3 0.01
107 18 0.08
108 12 0.05
109 9 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (101 bp):
AATAAAAATTAAAAATATATTTTATATTAAATATTGAATTACTATTTAAAAATAATAAAATAATA
AAAAATTTATATTAAATACTAATTACTATTAAAAAT
Found at i:707133 original size:156 final size:148
Alignment explanation
Indices: 706908--707260 Score: 423
Period size: 156 Copynumber: 2.3 Consensus size: 148
706898 AAAAAGTTAT
*
706908 TTTATATTTAAA-ATTGAATTACTATTTAAAAATAATAAAAAATAAAAAATTTATATTAAATACT
1 TTTATA-TTAAAGCTTGAATTACTATTTAAAAATAATAAAAAATAAAAAATTTATATTAAATACT
* *
706972 AAATTACTA-TTAAAA-ATAATAAAAATTAAAAATATATTTTATATTAAATTTTGAATTACTATT
65 AAATTACTATTTAAAACATAAT-AAAATTAAAAA-ATATTTCATATT-AA-----AA-TAATATT
** *
707035 TAAAAAATAATAAAATTTTCAAAAA-ATAT
121 T-AAAAATAATAAAAAATT-AAAAACATAA
*
707064 TTTATATTATAGCTTGAATTACTATTTAAAAATAAATAAAAAATAAAAAA-TTATATTAAAT-CT
1 TTTATATTAAAGCTTGAATTACTATTTAAAAAT-AATAAAAAATAAAAAATTTATATTAAATAC-
*
707127 TGAATTACTATTTAAAACATAATAAAATTAAAAAATATTTCATATTAAAATAATATTTAAAAATA
64 TAAATTACTATTTAAAACATAATAAAATTAAAAAATATTTCATATTAAAATAATATTTAAAAATA
707192 ATAAAAAATTAAAAACATAA
129 ATAAAAAATTAAAAACATAA
* * *
707212 TTTATATTAAATCTCT-AATTATTATTTAAAAATAATAAAAATTAAAAAA
1 TTTATATTAAAGCT-TGAATTACTATTTAAAAATAATAAAAAATAAAAAA
707261 CATATTTACA
Statistics
Matches: 178, Mismatches: 12, Indels: 23
0.84 0.06 0.11
Matches are distributed among these distances:
147 20 0.11
148 46 0.26
149 8 0.04
150 2 0.01
155 7 0.04
156 57 0.32
157 33 0.19
158 5 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (148 bp):
TTTATATTAAAGCTTGAATTACTATTTAAAAATAATAAAAAATAAAAAATTTATATTAAATACTA
AATTACTATTTAAAACATAATAAAATTAAAAAATATTTCATATTAAAATAATATTTAAAAATAAT
AAAAAATTAAAAACATAA
Found at i:707351 original size:22 final size:22
Alignment explanation
Indices: 707326--707570 Score: 121
Period size: 22 Copynumber: 11.3 Consensus size: 22
707316 TGTAATTATG
* *
707326 ACTTTAACAGTATATACATATT
1 ACTTTAACAGAATATACATATA
** *
707348 ACTTTAACAGAACGTACATATG
1 ACTTTAACAGAATATACATATA
*
707370 ATTTTAACTA-AATATACATATA
1 ACTTTAAC-AGAATATACATATA
* *
707392 AC----A-ATAATATATATATA
1 ACTTTAACAGAATATACATATA
707409 ACTTTAACA-ATATATACATATA
1 ACTTTAACAGA-ATATACATATA
* * *
707431 AATTTAACTA-AATGTACATATT
1 ACTTTAAC-AGAATATACATATA
* * *
707453 ACTTAAAAAGAATTTACATATA
1 ACTTTAACAGAATATACATATA
* * ** *
707475 ACTATAACAGTACGTACATATG
1 ACTTTAACAGAATATACATATA
* *
707497 ACTTTAACTA-ATTATATATATA
1 ACTTTAAC-AGAATATACATATA
* * * * *
707519 ATTTTAACTGAATGTATATATG
1 ACTTTAACAGAATATACATATA
* * *
707541 ACTTTAACTAGAATGTACCTATG
1 ACTTTAAC-AGAATATACATATA
707564 ACTTTAA
1 ACTTTAA
707571 TTAAATATAT
Statistics
Matches: 168, Mismatches: 42, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.01
17 13 0.08
18 1 0.01
21 3 0.02
22 128 0.76
23 22 0.13
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (22 bp):
ACTTTAACAGAATATACATATA
Found at i:707549 original size:44 final size:44
Alignment explanation
Indices: 707294--707550 Score: 190
Period size: 44 Copynumber: 6.0 Consensus size: 44
707284 ATATATAACA
* * * *
707294 TATATATATAACTTTCATTGAATGTA-ATTATGACTTTAAC-AGT
1 TATACATATAACTTTAACTGAATGTACA-TATGACTTTAACTAAT
* * * * *
707337 ATATACATATTACTTTAACAGAACGTACATATGATTTTAACTAAA
1 -TATACATATAACTTTAACTGAATGTACATATGACTTTAACTAAT
* * *
707382 TATACATATAAC---AA-T-AATATATATATAACTTTAAC-AAT
1 TATACATATAACTTTAACTGAATGTACATATGACTTTAACTAAT
* * * * **
707420 ATATACATATAAATTTAACTAAATGTACATATTACTTAAAAAGAAT
1 -TATACATATAACTTTAACTGAATGTACATATGACTT-TAACTAAT
* * * *
707466 T-TACATATAACTATAACAGTACGTACATATGACTTTAACTAAT
1 TATACATATAACTTTAACTGAATGTACATATGACTTTAACTAAT
* * *
707509 TATATATATAATTTTAACTGAATGTATATATGACTTTAACTA
1 TATACATATAACTTTAACTGAATGTACATATGACTTTAACTA
707551 GAATGTACCT
Statistics
Matches: 162, Mismatches: 40, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
38 2 0.01
39 26 0.16
41 2 0.01
42 2 0.01
43 7 0.04
44 115 0.71
45 5 0.03
46 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.39
Consensus pattern (44 bp):
TATACATATAACTTTAACTGAATGTACATATGACTTTAACTAAT
Found at i:707711 original size:54 final size:52
Alignment explanation
Indices: 707653--707776 Score: 135
Period size: 51 Copynumber: 2.4 Consensus size: 52
707643 AAATATGGGT
*
707653 TTTAATA-AAAATATTTTTTAAAATTTTTTATTACTTGAAAAAAGTAATTCAAAA
1 TTTAATATAAAATATTTTTTAAAATTTATTATT-CTT-AAAAAA-TAATTCAAAA
* ** * * *
707707 TTTAATATAAAATA-ATTTTACTATTTATTATTGTTAAATAATAATTCAAGA
1 TTTAATATAAAATATTTTTTAAAATTTATTATTCTTAAAAAATAATTCAAAA
*
707758 TTTAGTATAAAATATTTTT
1 TTTAATATAAAATATTTTT
707777 AATTTTTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
51 22 0.37
52 8 0.14
53 2 0.03
54 21 0.36
55 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (52 bp):
TTTAATATAAAATATTTTTTAAAATTTATTATTCTTAAAAAATAATTCAAAA
Found at i:707838 original size:55 final size:53
Alignment explanation
Indices: 707706--707858 Score: 148
Period size: 55 Copynumber: 2.9 Consensus size: 53
707696 GTAATTCAAA
* * * * ** ***
707706 ATTTAATATAAAATAATTTTACTATTT-ATTA-TTGTTAAATAATAATTCAAG
1 ATTTAATATAAAATATTTTTAATTTTTAATTACTTTTTAAATTGTAATTTGGG
* *
707757 ATTTAGTATAAAATATTTTTAATTTTTAATTATTTTTTAAATTGTAATTTGGG
1 ATTTAATATAAAATATTTTTAATTTTTAATTACTTTTTAAATTGTAATTTGGG
* * *
707810 ATTTAATATAAATTAACTTTTTAATTTTTTATTGCTTTTTAAATTGTAA
1 ATTTAATATAAAAT-A-TTTTTAATTTTTAATTACTTTTTAAATTGTAA
707859 ATCAAGAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
51 23 0.28
52 4 0.05
53 26 0.31
54 1 0.01
55 29 0.35
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (53 bp):
ATTTAATATAAAATATTTTTAATTTTTAATTACTTTTTAAATTGTAATTTGGG
Found at i:707906 original size:35 final size:36
Alignment explanation
Indices: 707828--707906 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
707818 TAAATTAACT
* *
707828 TTTTAATTTTTTATTGCTTTTTAAATTGTAAATCAAG
1 TTTTAA-TTTTTATTGATTTTTAAATAGTAAATCAAG
** *
707865 AATTAATTTTTATT-ATTTTTAAATAGTAAATCGAG
1 TTTTAATTTTTATTGATTTTTAAATAGTAAATCAAG
707900 TTTTAAT
1 TTTTAAT
707907 ATAAATTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
35 23 0.66
36 8 0.23
37 4 0.11
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (36 bp):
TTTTAATTTTTATTGATTTTTAAATAGTAAATCAAG
Found at i:707944 original size:90 final size:91
Alignment explanation
Indices: 707775--707944 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 91
707765 TAAAATATTT
* * * * *
707775 TTAATTTTTAATTATTTTTTAAATTGTAATTTGGGATTTAATATAAATTAACTTTTTAATTTTTT
1 TTAATTTTTAATTATTTTTTAAATAGTAAATCGAGATTTAATATAAATTAACTTCTTAATTTTTT
*
707840 ATTGCTTTTTAAATTGTAAATCAAGAA
66 ATT-CTTTTAAAATTGTAAATCAAGAA
*
707867 TTAATTTTT-ATTA-TTTTTAAATAGTAAATCGAGTTTTAATATAAATTATA-TTCTTAACTTTT
1 TTAATTTTTAATTATTTTTTAAATAGTAAATCGAGATTTAATATAAATTA-ACTTCTTAA-TTTT
707929 ATTATT-TTTTAAAATT
64 -TTATTCTTTTAAAATT
707945 AATTCGAGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
90 45 0.66
91 9 0.13
92 14 0.21
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (91 bp):
TTAATTTTTAATTATTTTTTAAATAGTAAATCGAGATTTAATATAAATTAACTTCTTAATTTTTT
ATTCTTTTAAAATTGTAAATCAAGAA
Found at i:707998 original size:52 final size:53
Alignment explanation
Indices: 707867--708012 Score: 156
Period size: 53 Copynumber: 2.8 Consensus size: 53
707857 AAATCAAGAA
* * *
707867 TTAATTTTTATTATTTTTAAATAGTAAATCGAGTTTTAATATAAATTATATTC
1 TTAATTTTTATTATTTTTAAATATTAATTCGAGATTTAATATAAATTATATTC
* *
707920 TTAACTTTTATTATTTTTTAAA-ATTAATTCGAGATTTAATGTAAAATT-T-TT-
1 TTAATTTTTATTA-TTTTTAAATATTAATTCGAGATTTAATAT-AAATTATATTC
* * **
707971 TTATTTTTTTGTTATTTTTAAATATTAATTTAAGATTTAATA
1 TTA-ATTTTTATTATTTTTAAATATTAATTCGAGATTTAATA
708013 ATTCAAGATT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
51 11 0.14
52 25 0.32
53 29 0.37
54 13 0.17
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (53 bp):
TTAATTTTTATTATTTTTAAATATTAATTCGAGATTTAATATAAATTATATTC
Found at i:708015 original size:143 final size:141
Alignment explanation
Indices: 707730--707993 Score: 311
Period size: 143 Copynumber: 1.9 Consensus size: 141
707720 AATTTTACTA
* * * *
707730 TTTATTATTGTTAAATAATAATTCAAGATTTAGTATAAAATATTTTTAATTTTTAATTATTTTTT
1 TTTATTATTGTTAAATAATAAATCAAGATTTAATATAAAATATTCTTAACTTTTAATTATTTTTT
* * * *
707795 AAATTGTAATTTGGGATTTAATATAAATTAACTTTTTAATTTTTTATTGCTTTTTAAATTGTAAA
66 AAAATGTAATTCGAGATTTAATATAAATT-A-TTTTTAATTTTTTATTGATTTTTAAATTGTAAA
*
707860 TCAAGAATTAATT
129 TCAAGAAATAATT
* * * *
707873 TTTATTATTTTTAAATAGTAAATCGAGTTTTAATATAAATTATATTCTTAACTTTT-ATTATTTT
1 TTTATTATTGTTAAATAATAAATCAAGATTTAATATAAA--ATATTCTTAACTTTTAATTATTTT
* * *
707937 TTAAAAT-TAATTCGAGATTTAATGTAAAATT-TTTTTATTTTTTTGTT-ATTTTTAAAT
64 TTAAAATGTAATTCGAGATTTAATAT-AAATTATTTTTAATTTTTTATTGATTTTTAAAT
707994 ATTAATTTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
140 9 0.09
141 14 0.14
143 48 0.47
144 19 0.18
145 13 0.13
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (141 bp):
TTTATTATTGTTAAATAATAAATCAAGATTTAATATAAAATATTCTTAACTTTTAATTATTTTTT
AAAATGTAATTCGAGATTTAATATAAATTATTTTTAATTTTTTATTGATTTTTAAATTGTAAATC
AAGAAATAATT
Found at i:708058 original size:69 final size:67
Alignment explanation
Indices: 707944--708081 Score: 170
Period size: 69 Copynumber: 2.0 Consensus size: 67
707934 TTTTTAAAAT
* * * * * * *
707944 TAATTCGAGATTTAATGTAAAATTTTTTTATTTTTTTGTTATTTTTAAATATTAATTTAAGATTT
1 TAATTCAAGATTTAATATAAAATTTTTTTAATTTTTTATGATTTTTAAAAAGTAATTTAAGATTT
708009 AA
66 AA
*
708011 TAATTCAAGA-TTAACTATAAAATATTATTTTAATTTTTTATGATTTTTAAAAAGTAATTTGAGA
1 TAATTCAAGATTTAA-TATAAAAT-TT-TTTTAATTTTTTATGATTTTTAAAAAGTAATTTAAGA
708075 TTTAA
63 TTTAA
708080 TA
1 TA
708082 TAAAATATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 4 0.07
67 16 0.27
68 2 0.03
69 38 0.63
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (67 bp):
TAATTCAAGATTTAATATAAAATTTTTTTAATTTTTTATGATTTTTAAAAAGTAATTTAAGATTT
AA
Found at i:708167 original size:53 final size:54
Alignment explanation
Indices: 708011--708157 Score: 167
Period size: 53 Copynumber: 2.7 Consensus size: 54
708001 TAAGATTTAA
* * *
708011 TAATTCAAGA-TTAACTATAAAATATTATTT-TAATTTTTTATGATTTTTAAAAAG
1 TAATTTAAGATTTAA-TATAAAATATT-TTTATAATTTTTTATAATTTTTAAAAAC
* * * *
708065 TAATTTGAGATTTAATATAAAATA-TTTTA-AAATTTTTAGTATTTTTTAAATAC
1 TAATTTAAGATTTAATATAAAATATTTTTATAATTTTTTA-TAATTTTTAAAAAC
*
708118 TAATTTAAGATTTAATATAAAATATTTTTATTATTTTTTA
1 TAATTTAAGATTTAATATAAAATATTTTTATAATTTTTTA
708158 AATAGTTAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
52 11 0.14
53 34 0.44
54 22 0.28
55 11 0.14
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (54 bp):
TAATTTAAGATTTAATATAAAATATTTTTATAATTTTTTATAATTTTTAAAAAC
Found at i:708954 original size:20 final size:20
Alignment explanation
Indices: 708903--708956 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
708893 ATTACAAGCA
* *
708903 ATGTATCGATACAATTCATC
1 ATGTATCGATATAATTCACC
708923 ATGTATCGATATAATGT-ACC
1 ATGTATCGATATAAT-TCACC
708943 ATGTATCGATATAA
1 ATGTATCGATATAA
708957 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATATAATTCACC
Found at i:709016 original size:20 final size:20
Alignment explanation
Indices: 708988--709039 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
708978 CCAGTTTTAG
708988 GTATCGATACAATTG-TCCAT
1 GTATCGATACAATTGAT-CAT
*
709008 GTATAGATACAA-TGATCAT
1 GTATCGATACAATTGATCAT
709027 GTATCGATACAAT
1 GTATCGATACAAT
709040 GTATCGATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATCGATACAATTGATCAT
Found at i:709043 original size:13 final size:13
Alignment explanation
Indices: 709025--709051 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
709015 TACAATGATC
709025 ATGTATCGATACA
1 ATGTATCGATACA
709038 ATGTATCGATACA
1 ATGTATCGATACA
709051 A
1 A
709052 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:709067 original size:33 final size:32
Alignment explanation
Indices: 709006--709070 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
708996 ACAATTGTCC
* *
709006 ATGTATAGATACAATGATCATGTATCGATACA
1 ATGTATAGATACAAAGATAATGTATCGATACA
*
709038 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATAGATACAAAG-ATAATGTATCGATACA
709071 TCTGGGTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATAGATACAAAGATAATGTATCGATACA
Found at i:711458 original size:20 final size:21
Alignment explanation
Indices: 711433--711471 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
711423 TTGTTGGTGA
*
711433 TTTTGATG-AAAAATGAAGTG
1 TTTTGAAGTAAAAATGAAGTG
711453 TTTTGAAGTAAAAATGAAG
1 TTTTGAAGTAAAAATGAAG
711472 AAATTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (21 bp):
TTTTGAAGTAAAAATGAAGTG
Found at i:716817 original size:20 final size:20
Alignment explanation
Indices: 716791--716846 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
716781 ACTACCAGTT
716791 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
*
716810 TCCATGTATCGAAACAA-TGA
1 T-CATGTATCGATACAATTGA
*
716830 TCATTTATCGATACAAT
1 TCATGTATCGATACAAT
716847 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:717232 original size:52 final size:53
Alignment explanation
Indices: 717167--717370 Score: 214
Period size: 52 Copynumber: 3.8 Consensus size: 53
717157 AGATCCTAAC
717167 AATAGTAATTTGAGATTTAATATAAAATATTTTTTAA-TTTTTATTATTTTTA
1 AATAGTAATTTGAGATTTAATATAAAATATTTTTTAATTTTTTATTATTTTTA
* * * * * **
717219 AAAAGTAAATTGAGACTTAATATGAAATA-TTTGTAATTTTTTATTAAATTTA
1 AATAGTAATTTGAGATTTAATATAAAATATTTTTTAATTTTTTATTATTTTTA
* * * * *
717271 ACTTGTAATTTGAGATTTAGTATAAAATATTTTTAAAATTTTTATTATTAATTTTTTG
1 AATAGTAATTTGAGATTTAATATAAAATATTTTT-TAA-TTTT-TTATT-A-TTTTTA
* *
717329 AATAGTAATTTGGGATTTAATATAAATTATATTTTTAATTTT
1 AATAGTAATTTGAGATTTAATATAAAATAT-TTTTTAATTTT
717371 CTAAATAGTA
Statistics
Matches: 119, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
51 6 0.05
52 60 0.50
53 3 0.03
54 2 0.02
55 4 0.03
56 5 0.04
57 5 0.04
58 30 0.25
59 4 0.03
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (53 bp):
AATAGTAATTTGAGATTTAATATAAAATATTTTTTAATTTTTTATTATTTTTA
Found at i:717369 original size:23 final size:22
Alignment explanation
Indices: 717343--717414 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
717333 GTAATTTGGG
717343 ATTTAATATAAATTATATTTTTA
1 ATTTAATATAAA-TATATTTTTA
* *
717366 ATTT--TCTAAATAGTAATTTTTT
1 ATTTAATATAAATA-T-ATTTTTA
*
717388 ATTTAATATAAACTATTTTTTTA
1 ATTTAATATAAA-TATATTTTTA
717411 ATTT
1 ATTT
717415 TTTATTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.05
21 6 0.15
22 10 0.26
23 13 0.33
24 6 0.15
25 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
ATTTAATATAAATATATTTTTA
Found at i:717378 original size:45 final size:45
Alignment explanation
Indices: 717313--717415 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
717303 TTAAAATTTT
* * * *
717313 TATTATTAATTTTTTGAATAGTAATTTGGGATTTAATATAAATTA
1 TATTTTTAATTTTCTAAATAGTAATTTGGGATTTAATATAAACTA
***
717358 TATTTTTAATTTTCTAAATAGTAATTTTTTATTTAATATAAACTA
1 TATTTTTAATTTTCTAAATAGTAATTTGGGATTTAATATAAACTA
*
717403 TTTTTTTAATTTT
1 TATTTTTAATTTT
717416 TTATTATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (45 bp):
TATTTTTAATTTTCTAAATAGTAATTTGGGATTTAATATAAACTA
Found at i:717495 original size:51 final size:54
Alignment explanation
Indices: 717388--717589 Score: 137
Period size: 51 Copynumber: 3.9 Consensus size: 54
717378 GTAATTTTTT
*
717388 ATTTAATATAA-ACTATTTTTTTAATTTTTTATTATTTTTAAAATAGTAATAAAG
1 ATTTAATATAATA-TATTTTTTTAATTTTTTATTATTTTAAAAATAGTAATAAAG
* *
717442 ATTTAATATAATATAATTTTTTTAA-TTTTTA-T-TTTTAAATAAT-G-ATTCAAG
1 ATTTAATATAATAT-ATTTTTTTAATTTTTTATTATTTTAAA-AATAGTAATAAAG
* * * * * ** * *
717493 ATTT--TATAAAATA-TTTTGTAATATTCTGTTATTTTTTAAATTGTAATTTAAG
1 ATTTAATATAATATATTTTTTTAATTTTTTATTATTTTAAAAATAGTAA-TAAAG
*
717545 ATTTAATAT-A-A-A-TTTTTTAA-TTTTTATTAATTTTTAAAA-AGTAAT
1 ATTTAATATAATATATTTTTTTAATTTTTTATT-ATTTTAAAAATAGTAAT
717590 TAATAAGAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 29
0.72 0.11 0.18
Matches are distributed among these distances:
47 7 0.06
48 4 0.03
49 12 0.10
50 15 0.13
51 27 0.23
52 16 0.14
53 5 0.04
54 21 0.18
55 11 0.09
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (54 bp):
ATTTAATATAATATATTTTTTTAATTTTTTATTATTTTAAAAATAGTAATAAAG
Found at i:717904 original size:21 final size:21
Alignment explanation
Indices: 717874--717913 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
717864 CCTTATTTGA
717874 AATATTATTTTTATGTTAAAAT
1 AATATTATTTTTAT-TTAAAAT
717896 AATA-TATTTTTATTTAAA
1 AATATTATTTTTATTTAAA
717914 TTTTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
AATATTATTTTTATTTAAAAT
Found at i:717914 original size:19 final size:18
Alignment explanation
Indices: 717866--717913 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
717856 CAGCTCAACC
*
717866 TTATTTGAAATATTATTT
1 TTATTTAAAATATTATTT
717884 TTATGTTAAAATAATATATTT
1 TTAT-TTAAAAT-AT-TATTT
717905 TTATTTAAA
1 TTATTTAAA
717914 TTTTATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 6 0.23
20 7 0.27
21 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TTATTTAAAATATTATTT
Found at i:718268 original size:17 final size:19
Alignment explanation
Indices: 718234--718278 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
718224 ATATTATTTT
*
718234 TATTTAA-ATAAATTATAA
1 TATTTAATATAAATAATAA
718252 -ATTTAATATAAA-AATAA
1 TATTTAATATAAATAATAA
*
718269 TTTTTAATAT
1 TATTTAATAT
718279 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTAATATAAATAATAA
Found at i:718638 original size:2 final size:2
Alignment explanation
Indices: 718631--718657 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
718621 CAAATATGCT
718631 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
718658 TAAAATTATG
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:719967 original size:2 final size:2
Alignment explanation
Indices: 719962--719993 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
719952 AAATCTCTCC
*
719962 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
719994 TCTTAAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:720116 original size:7 final size:7
Alignment explanation
Indices: 720104--720136 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
720094 TGACAAGCCC
720104 TTCTTTG
1 TTCTTTG
720111 TTCTTTG
1 TTCTTTG
720118 TTCTTTG
1 TTCTTTG
720125 TTCTTTG
1 TTCTTTG
720132 TTCTT
1 TTCTT
720137 ACTGAGGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (7 bp):
TTCTTTG
Found at i:720670 original size:6 final size:6
Alignment explanation
Indices: 720661--720708 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
720651 AATTTTTATT
* *
720661 TATAAA TATAAA TATATATA TATATA TATATA TATCAAA TATAAA TAT
1 TATAAA TATAAA TATA-A-A TATAAA TATAAA TAT-AAA TATAAA TAT
720709 TAGATGTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 26 0.70
7 6 0.16
8 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TATAAA
Found at i:720679 original size:2 final size:2
Alignment explanation
Indices: 720661--720695 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
720651 AATTTTTATT
* *
720661 TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
720696 CAAATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:722858 original size:28 final size:28
Alignment explanation
Indices: 722818--722889 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
722808 GGAATAAAGC
** *
722818 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
722846 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
722874 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
722890 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:722858 original size:79 final size:78
Alignment explanation
Indices: 722676--722863 Score: 216
Period size: 79 Copynumber: 2.4 Consensus size: 78
722666 TTGGAATCTT
* * * *
722676 CCCTTGAAAATAACGGGGCTGGAGTATCCCCAATTGTGAGAAATCGATGATTAGAAAAAAAAACG
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATTAGAAAAAAAAACG
722741 GGAATGGAGTATC
66 GGAATGGAGTATC
* * * * * **
722754 CCTTCGAAAATAACGGGGTTAGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGGAATAAAGC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA--TTAGAAAAAAAAA
**
722818 CGGGGTTGGAGTATC
64 CGGGAATGGAGTATC
* *
722833 CCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCC
722864 GATGAAATAA
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 42 0.46
79 48 0.53
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (78 bp):
CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATTAGAAAAAAAAACG
GGAATGGAGTATC
Found at i:723034 original size:51 final size:51
Alignment explanation
Indices: 722877--723047 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
722867 GAAATAACGA
* * *
722877 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
* * * * *
722929 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
722982 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
*
723033 GGTTAGAGTATCCCC
1 GGTTGGAGTATCCCC
723048 TCAGAAATAA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 39 0.39
52 17 0.17
53 33 0.33
54 11 0.11
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:725586 original size:13 final size:13
Alignment explanation
Indices: 725568--725593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
725558 ACAAAGATCC
725568 ATGTATCGATACA
1 ATGTATCGATACA
725581 ATGTATCGATACA
1 ATGTATCGATACA
725594 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:725589 original size:33 final size:33
Alignment explanation
Indices: 725547--725613 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
725537 AAAATTTCCA
***
725547 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
725580 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
725613 A
1 A
725614 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Done.