Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 174 of 344
Found at i:58118500 original size:28 final size:27
Alignment explanation
Indices: 58118443--58118594 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
58118433 TAAATTGTGC
*
58118443 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58118470 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58118498 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58118525 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
58118553 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58118580 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58118595 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:58118507 original size:55 final size:55
Alignment explanation
Indices: 58118443--58118594 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
58118433 TAAATTGTGC
*
58118443 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
58118498 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
58118553 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
58118595 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:58121306 original size:24 final size:23
Alignment explanation
Indices: 58121261--58121313 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
58121251 TTATTAATAA
58121261 TAAATA-TTATTGAAAATATTAT
1 TAAATATTTATTGAAAATATTAT
58121283 TAAATATTTAATTG-AAATACTTAT
1 TAAATATTT-ATTGAAAATA-TTAT
58121307 TAAATAT
1 TAAATAT
58121314 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.21
23 7 0.25
24 15 0.54
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
TAAATATTTATTGAAAATATTAT
Found at i:58121463 original size:24 final size:25
Alignment explanation
Indices: 58121431--58121479 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
58121421 AGTGAATCAA
58121431 ATATGTTAATATAA-ATTTTT-TTTG
1 ATATGTTAAT-TAATATTTTTCTTTG
*
58121455 ATATTTTAATTAATATTTTTCTTTG
1 ATATGTTAATTAATATTTTTCTTTG
58121480 TAAACTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 15 0.68
25 4 0.18
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
ATATGTTAATTAATATTTTTCTTTG
Found at i:58123990 original size:13 final size:14
Alignment explanation
Indices: 58123972--58124000 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58123962 CTAAAAATTT
58123972 AAAAAT-ATTTTTA
1 AAAAATCATTTTTA
58123985 AAAAATCATTTTTA
1 AAAAATCATTTTTA
58123999 AA
1 AA
58124001 CTTGTATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATCATTTTTA
Found at i:58128706 original size:18 final size:18
Alignment explanation
Indices: 58128683--58128718 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
58128673 TAACATATAA
*
58128683 AAGTATATTATACATACC
1 AAGTATATAATACATACC
58128701 AAGTATATAATACATACC
1 AAGTATATAATACATACC
58128719 TGACCAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:58128915 original size:39 final size:39
Alignment explanation
Indices: 58128843--58129010 Score: 275
Period size: 39 Copynumber: 4.3 Consensus size: 39
58128833 TCACCACCAG
*
58128843 AAAGCATGCGGGACTTTAAGCCCGGATATAATACCAGCAT
1 AAAGCCTGCGGGACTTT-AGCCCGGATATAATACCAGCAT
58128883 AAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
1 AAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
* *
58128922 AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCAC
1 AAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
*
58128961 AAATGCCTTCGGGAC-TTAGCCCGGATATAATACCAGCAT
1 AAA-GCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
58129000 AAAGCCTGCGG
1 AAAGCCTGCGG
58129011 ACCTCATGTC
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 7 0.06
39 87 0.73
40 26 0.22
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (39 bp):
AAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
Found at i:58132683 original size:17 final size:17
Alignment explanation
Indices: 58132661--58132697 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
58132651 GTATCAAATG
58132661 TACCAATATAGTTAACT
1 TACCAATATAGTTAACT
58132678 TACCAATATAGTTAACT
1 TACCAATATAGTTAACT
58132695 TAC
1 TAC
58132698 ATAACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (17 bp):
TACCAATATAGTTAACT
Found at i:58140936 original size:20 final size:21
Alignment explanation
Indices: 58140911--58140966 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
58140901 TGTTCTTAGG
58140911 TCACACGGGCGTGTGCCTCC-
1 TCACACGGGCGTGTGCCTCCT
*
58140931 TCACACGGGCATGTGCCTCCTT
1 TCACACGGGCGTGTGCCTCC-T
*
58140953 TCACATGGGCGTGT
1 TCACACGGGCGTGT
58140967 TTCCTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
22 12 0.39
ACGTcount: A:0.12, C:0.34, G:0.29, T:0.25
Consensus pattern (21 bp):
TCACACGGGCGTGTGCCTCCT
Found at i:58144596 original size:7 final size:8
Alignment explanation
Indices: 58144571--58144601 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
58144561 ATGATAAGAG
58144571 AAATATAA
1 AAATATAA
58144579 AAATATAA
1 AAATATAA
58144587 AAATAT-A
1 AAATATAA
58144594 AAATATAA
1 AAATATAA
58144602 GATAATTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAATATAA
Found at i:58144598 original size:15 final size:16
Alignment explanation
Indices: 58144571--58144601 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
58144561 ATGATAAGAG
58144571 AAATATAAAAATATAA
1 AAATATAAAAATATAA
58144587 AAATAT-AAAATATAA
1 AAATATAAAAATATAA
58144602 GATAATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATAAAAATATAA
Found at i:58147073 original size:22 final size:22
Alignment explanation
Indices: 58147045--58147105 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
58147035 AATACGATTA
58147045 GCACAAAGCCATAATCAAGATG
1 GCACAAAGCCATAATCAAGATG
* * * *
58147067 GCACAAAGCCATATTTAGGTTG
1 GCACAAAGCCATAATCAAGATG
*
58147089 GCACAGAGCCATAATCA
1 GCACAAAGCCATAATCA
58147106 GAATAATTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (22 bp):
GCACAAAGCCATAATCAAGATG
Found at i:58147551 original size:27 final size:27
Alignment explanation
Indices: 58147521--58147582 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
58147511 CAAAACATTC
* * *
58147521 ATTTTACCCTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTAATCCAGTA
*
58147548 ATTTTACACTACAAGGGTAATCCGGTA
1 ATTTTACACTACAAGGGTAATCCAGTA
58147575 ATTTTACA
1 ATTTTACA
58147583 AACTGGGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTAATCCAGTA
Found at i:58147592 original size:27 final size:27
Alignment explanation
Indices: 58147562--58147620 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
58147552 TACACTACAA
*
58147562 GGGTAATCCGGTAATTTTACAAACTGG
1 GGGTAATCCGATAATTTTACAAACTGG
* * * *
58147589 GGGTATTTCGATAATTTTACACATTGG
1 GGGTAATCCGATAATTTTACAAACTGG
58147616 GGGTA
1 GGGTA
58147621 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (27 bp):
GGGTAATCCGATAATTTTACAAACTGG
Found at i:58147620 original size:54 final size:54
Alignment explanation
Indices: 58147572--58147807 Score: 255
Period size: 54 Copynumber: 4.4 Consensus size: 54
58147562 GGGTAATCCG
* *
58147572 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTACACATTGGGGGTATTTTTA
1 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATTGGGGGTA-TTTCA
* * * * * * *
58147627 -TAATTTCAAAAATTGAGGGTATTT-TAGTAATTTTACAAATCGGGAGTATTTCA
1 GTAATTTTACAAACTGGGGGTATTTCGA-TAATTTTACAAATTGGGGGTATTTCA
* * * *
58147680 GAAATTTTACAAACCGGGGGTATTTCAATAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCA
* * * *
58147734 GTAATTTTACAAAATGGGGGTATTTAGATAATCTTACAAATT-AGGGTATTTCA
1 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCA
*
58147787 GTAATTTTTCAAA-TCGGGGGT
1 GTAATTTTACAAACT-GGGGGT
58147808 CTTAACGACC
Statistics
Matches: 151, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.01
53 34 0.23
54 115 0.76
55 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCA
Found at i:58147621 original size:27 final size:27
Alignment explanation
Indices: 58147573--58147807 Score: 219
Period size: 27 Copynumber: 8.7 Consensus size: 27
58147563 GGTAATCCGG
*
58147573 TAATTTTACAAACTGGGGGTATTTCGA
1 TAATTTTACAAATTGGGGGTATTTCGA
* **
58147600 TAATTTTACACATTGGGGGTATTTTTA
1 TAATTTTACAAATTGGGGGTATTTCGA
* * * *
58147627 TAATTTCAAAAATTGAGGGTATTT-TA
1 TAATTTTACAAATTGGGGGTATTTCGA
* *
58147653 GTAATTTTACAAATCGGGAGTATTTCAGA
1 -TAATTTTACAAATTGGGGGTATTTC-GA
** *
58147682 -AATTTTACAAACCGGGGGTATTTCAA
1 TAATTTTACAAATTGGGGGTATTTCGA
*
58147708 TAATTTTACAAATTGAGGGTATTTC-A
1 TAATTTTACAAATTGGGGGTATTTCGA
* *
58147734 GTAATTTTACAAAATGGGGGTATTTAGA
1 -TAATTTTACAAATTGGGGGTATTTCGA
* *
58147762 TAATCTTACAAATT-AGGGTATTTC-A
1 TAATTTTACAAATTGGGGGTATTTCGA
* *
58147787 GTAATTTTTCAAATCGGGGGT
1 -TAATTTTACAAATTGGGGGT
58147808 CTTAACGACC
Statistics
Matches: 169, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 23 0.14
27 143 0.85
28 1 0.01
29 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATTGGGGGTATTTCGA
Found at i:58147657 original size:81 final size:80
Alignment explanation
Indices: 58147572--58147793 Score: 277
Period size: 81 Copynumber: 2.8 Consensus size: 80
58147562 GGGTAATCCG
* **
58147572 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTACACATTGGGGGTATTTTTATAATTTCAAA
1 GTAATTTTACAAA-TGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCAATAATTTCAAA
*
58147637 AATTGAGGGTATTTTA
65 AATTGAGGGTATTTCA
* ** * *
58147653 GTAATTTTACAAATCGGGAGTATTTCAGA-AATTTTACAAACCGGGGGTATTTCAATAATTTTAC
1 GTAATTTTACAAAT-GGGGGTATTTC-GATAATTTTACAAATTGGGGGTATTTCAATAATTTCAA
58147717 AAATTGAGGGTATTTCA
64 AAATTGAGGGTATTTCA
* * * *
58147734 GTAATTTTACAAAATGGGGGTATTTAGATAATCTTACAAATT-AGGGTATTTCAGTAATTT
1 GTAATTTTAC-AAATGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCAATAATTT
58147794 TTCAAATCGG
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 19 0.16
81 96 0.79
82 6 0.05
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (80 bp):
GTAATTTTACAAATGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCAATAATTTCAAAA
ATTGAGGGTATTTCA
Found at i:58157599 original size:137 final size:137
Alignment explanation
Indices: 58157340--58157604 Score: 318
Period size: 137 Copynumber: 1.9 Consensus size: 137
58157330 TGTCATTAGT
* * * * ** * *
58157340 GTTACCATGTTTTGGGTCCTGGTCCTAAATGTCCTAATGATGGATGAGTTCTGGCATTTGTTGCG
1 GTTACCATATTTCGGGTCCTGGTCCTAAATGTCCTAACGATGGATGAGGTCCAGCATTAGTTGCA
* * ** *
58157405 GACACTCGTCAGCTTGTGTGAGAGGCATCATGTAGCTATATTTTGACTGTCAACTTGTGTGAGTA
66 GACACTCATCAGCTTGTGTGAGAGGCATCATGTAGCTACATTCCGACCGTCAACTTGTGTGAGTA
58157470 GACCCAG
131 GACCCAG
* * * *
58157477 GTTACCATATTTCGGGTGCTGGTCCTGAATGTCCTACCGATGGTTGAGGTCCAGCATTAGTTGCA
1 GTTACCATATTTCGGGTCCTGGTCCTAAATGTCCTAACGATGGATGAGGTCCAGCATTAGTTGCA
* * *
58157542 GATACTCATCAGCTTGTGTGAGCA-GCATCGTGTAGCTTACATTCCGACCGTC-GCTTGTGTGAG
66 GACACTCATCAGCTTGTGTGAG-AGGCATCATGTAGC-TACATTCCGACCGTCAACTTGTGTGAG
58157605 CAGGCCCATT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 94 0.89
138 12 0.11
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (137 bp):
GTTACCATATTTCGGGTCCTGGTCCTAAATGTCCTAACGATGGATGAGGTCCAGCATTAGTTGCA
GACACTCATCAGCTTGTGTGAGAGGCATCATGTAGCTACATTCCGACCGTCAACTTGTGTGAGTA
GACCCAG
Found at i:58174419 original size:39 final size:40
Alignment explanation
Indices: 58174324--58174546 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
58174314 TTGAATGCTG
*
58174324 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
58174362 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
58174403 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
58174442 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
58174481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
58174520 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
58174547 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:58174510 original size:79 final size:81
Alignment explanation
Indices: 58174324--58174546 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
58174314 TTGAATGCTG
* * *
58174324 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
58174386 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
58174403 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
58174464 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
58174481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
58174545 TG
66 TG
58174547 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:58174568 original size:79 final size:79
Alignment explanation
Indices: 58174324--58174579 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
58174314 TTGAATGCTG
* * * *
58174324 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
58174385 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
58174403 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
58174467 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
58174481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
58174544 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
58174561 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58174580 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:58182399 original size:39 final size:40
Alignment explanation
Indices: 58182304--58182526 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
58182294 TTGAATGATG
*
58182304 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
58182342 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
58182383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
58182422 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
58182461 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
58182500 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
58182527 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:58182490 original size:79 final size:81
Alignment explanation
Indices: 58182304--58182526 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
58182294 TTGAATGATG
* * *
58182304 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
58182366 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
58182383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
58182444 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
58182461 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
58182525 TG
66 TG
58182527 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:58182548 original size:79 final size:79
Alignment explanation
Indices: 58182304--58182559 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
58182294 TTGAATGATG
* * * *
58182304 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
58182365 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
58182383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
58182447 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
58182461 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
58182524 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
58182541 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58182560 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:58186843 original size:27 final size:28
Alignment explanation
Indices: 58186805--58186864 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
58186795 CAGTTAACAT
* *
58186805 GGGTA-TTCCACCTAGACAATAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
*
58186832 GGGTAGTT-CACCAAGATAAGAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
58186859 GGGTAG
1 GGGTAG
58186865 CTTGCTGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (28 bp):
GGGTAGTTCCACCAAGACAAGAAACACG
Found at i:58213292 original size:27 final size:26
Alignment explanation
Indices: 58213244--58213303 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58213234 GCGAGGCTGC
*
58213244 CAGATATTGTGACGAAGTCACTAGATA
1 CAGATATTGTGACGAAGCCACTAGA-A
* * *
58213271 CAGATATTGTGGCTAGGCCACTAGAA
1 CAGATATTGTGACGAAGCCACTAGAA
58213297 CAGATAT
1 CAGATAT
58213304 ATATGTGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACTAGAA
Found at i:58220353 original size:27 final size:26
Alignment explanation
Indices: 58220305--58220364 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58220295 GCAAGGCTGC
*
58220305 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
58220332 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
58220358 CAGATAT
1 CAGATAT
58220365 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58237224 original size:5 final size:6
Alignment explanation
Indices: 58237211--58237245 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
58237201 ATAATTTAAT
58237211 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAA
58237246 CATATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:58237233 original size:14 final size:14
Alignment explanation
Indices: 58237214--58237240 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58237204 ATTTAATAAA
58237214 TAAAAATAAAAATC
1 TAAAAATAAAAATC
58237228 TAAAAATAAAAAT
1 TAAAAATAAAAAT
58237241 AAAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:58237245 original size:21 final size:22
Alignment explanation
Indices: 58237188--58237245 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
58237178 CAACCCAATC
*
58237188 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
58237213 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
58237233 ATAAAAATAAAAA
1 ATAAAAATAAAAA
58237246 CATATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:58237278 original size:9 final size:9
Alignment explanation
Indices: 58237264--58237358 Score: 113
Period size: 9 Copynumber: 10.6 Consensus size: 9
58237254 TTTATACAAA
58237264 TAATTCGGT
1 TAATTCGGT
58237273 TAATTCGGT
1 TAATTCGGT
58237282 TAATTCGGT
1 TAATTCGGT
*
58237291 TAA-TCTGGG
1 TAATTC-GGT
58237300 TAATTCAGG-
1 TAATTC-GGT
58237309 TAATTCGGT
1 TAATTCGGT
* *
58237318 TAATTTGAT
1 TAATTCGGT
*
58237327 TAATTCGAT
1 TAATTCGGT
*
58237336 TAATTCTGT
1 TAATTCGGT
58237345 TAATTCGGT
1 TAATTCGGT
58237354 TAATT
1 TAATT
58237359 TTATTCTTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
8 4 0.05
9 67 0.89
10 4 0.05
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:58252327 original size:14 final size:14
Alignment explanation
Indices: 58252308--58252339 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58252298 CACGTGGTCT
58252308 TACACAAAATCACA
1 TACACAAAATCACA
*
58252322 TACACAAAATCTCA
1 TACACAAAATCACA
58252336 TACA
1 TACA
58252340 AAATCATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (14 bp):
TACACAAAATCACA
Found at i:58255470 original size:28 final size:28
Alignment explanation
Indices: 58255388--58255489 Score: 107
Period size: 28 Copynumber: 3.7 Consensus size: 28
58255378 CTATTAAGAT
* * *
58255388 TCCA-CAAAAAATAACTTGAGCGGGAAG
1 TCCACCAAAAACTATCTTAAGCGGGAAG
* * **
58255415 TTCACAAAAAACTATCTTAAGCAAGAAG
1 TCCACCAAAAACTATCTTAAGCGGGAAG
*
58255443 TCCACCAAAAACTATCTTAAGTGGGAAG
1 TCCACCAAAAACTATCTTAAGCGGGAAG
**
58255471 TCCACCAATGACTATCTTA
1 TCCACCAAAAACTATCTTA
58255490 CGTAGGGAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 3 0.05
28 57 0.95
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.22
Consensus pattern (28 bp):
TCCACCAAAAACTATCTTAAGCGGGAAG
Found at i:58255506 original size:28 final size:27
Alignment explanation
Indices: 58255453--58255572 Score: 100
Period size: 28 Copynumber: 4.3 Consensus size: 27
58255443 TCCACCAAAA
* ** *
58255453 ACTATCTTAAGTGGGAAGTCCACCAATG
1 ACTATCTTACGTGGG-AGTCTGCCAAGG
58255481 ACTATCTTACGTAGGGAGTCTGCCAAGG
1 ACTATCTTACGT-GGGAGTCTGCCAAGG
* *
58255509 ATTGTCTTACACG-GGGAGTCTGCCAAGG
1 ACTATCTT--ACGTGGGAGTCTGCCAAGG
* *
58255537 ACTATCTTATGTGGAATGTCTGCCATAGG
1 ACTATCTTACGTGGGA-GTCTGCCA-AGG
58255566 -CTATCTT
1 ACTATCTT
58255573 GAAGACAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.03
27 3 0.04
28 62 0.82
29 6 0.08
30 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (27 bp):
ACTATCTTACGTGGGAGTCTGCCAAGG
Found at i:58258348 original size:24 final size:24
Alignment explanation
Indices: 58258229--58258347 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
58258219 GCTTTATCAT
* *
58258229 ATAACTGGAGGCCT-AGCCTCTTATA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
58258254 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
58258278 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
58258302 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
58258326 ATAA-TGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58258348 TGCACTTCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.20
24 59 0.66
25 12 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58258424 original size:20 final size:20
Alignment explanation
Indices: 58258399--58258437 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
58258389 TATGTATACA
58258399 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
58258419 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
58258438 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:58258443 original size:20 final size:20
Alignment explanation
Indices: 58258400--58258444 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
58258390 ATGTATACAT
**
58258400 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
58258420 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
58258440 CATGT
1 CATGT
58258445 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:58266142 original size:24 final size:24
Alignment explanation
Indices: 58266110--58266185 Score: 143
Period size: 24 Copynumber: 3.2 Consensus size: 24
58266100 GCCTAGCCTT
58266110 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
58266134 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
58266158 TTTTAATAACTGGGGTATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
58266182 TTTT
1 TTTT
58266186 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:58266259 original size:20 final size:20
Alignment explanation
Indices: 58266234--58266300 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
58266224 TTATGAATAC
58266234 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58266254 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58266274 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58266294 ACCATGT
1 ATCATGT
58266301 TTATTAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58266265 original size:11 final size:11
Alignment explanation
Indices: 58266234--58266289 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
58266224 TTATGAATAC
58266234 ATCATGTGCAT
1 ATCATGTGCAT
*
58266245 ATCA--TACAT
1 ATCATGTGCAT
58266254 ATCATGTGCAT
1 ATCATGTGCAT
*
58266265 ATCA--TACAT
1 ATCATGTGCAT
*
58266274 GTCATGTGCAT
1 ATCATGTGCAT
58266285 ATCAT
1 ATCAT
58266290 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:58274864 original size:42 final size:42
Alignment explanation
Indices: 58274746--58274908 Score: 132
Period size: 42 Copynumber: 3.9 Consensus size: 42
58274736 CACACTACCA
* * * * *
58274746 ATGCCATATCCCAGATATGGTATTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTAGATGAAATCTCATATAG
* ** * *
58274788 ATGCCAATAGCTTAGCTATGGTCTTACG-TGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTA-GATGAAATCTCATATAG
* * * *
58274831 ATGCCATATCTCAGATATGGCCTTAGACGAAATCTCACATAG
1 ATGCCATATCCCAGATATGGTCTTAGATGAAATCTCATATAG
** * *
58274873 ATG-CATATCCCAGATATTATCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTAGATGAAATCTCA
58274909 AAAACCCTAA
Statistics
Matches: 95, Mismatches: 23, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 27 0.28
42 36 0.38
43 32 0.34
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTAGATGAAATCTCATATAG
Found at i:58281715 original size:56 final size:56
Alignment explanation
Indices: 58281646--58281945 Score: 476
Period size: 56 Copynumber: 5.4 Consensus size: 56
58281636 ATCCCAATAG
* * *
58281646 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAATGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
*
58281702 GGTCTTACCCGCACACATATATCTG-AGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATC-GAAGTCACATATCGATGCCAACGTATAAAACGT
*
58281758 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* *
58281814 AGTCTTACTCGTACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* * *
58281870 GGTCTTACTCACACACATATATCGATGTCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* *
58281926 AGTCTTAGTCGCACACATAT
1 GGTCTTACTCGCACACATAT
58281946 CGGAATCCTA
Statistics
Matches: 225, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
55 1 0.00
56 223 0.99
57 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:58283329 original size:10 final size:10
Alignment explanation
Indices: 58283314--58283349 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
58283304 TAGGTTACTT
58283314 TGGGCCATGA
1 TGGGCCATGA
58283324 TGGGCCGA-GA
1 TGGGCC-ATGA
58283334 TGGGCCATGA
1 TGGGCCATGA
58283344 TGGGCC
1 TGGGCC
58283350 CAATGGGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.17
Consensus pattern (10 bp):
TGGGCCATGA
Found at i:58283361 original size:20 final size:20
Alignment explanation
Indices: 58283314--58283358 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
58283304 TAGGTTACTT
*
58283314 TGGGCCATGATGGGCCGAGA
1 TGGGCCATGATGGGCCCAGA
58283334 TGGGCCATGATGGGCCCA-A
1 TGGGCCATGATGGGCCCAGA
58283353 TGGGCC
1 TGGGCC
58283359 CATAGGCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (20 bp):
TGGGCCATGATGGGCCCAGA
Found at i:58283458 original size:27 final size:27
Alignment explanation
Indices: 58283428--58283508 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
58283418 AATCTCATAT
* * *
58283428 CTGTAGGCTAGCATTACTGAAGTACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
58283455 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
**
58283482 CTGTAGGGTAGAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
58283509 TTGGTTTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:58283580 original size:27 final size:27
Alignment explanation
Indices: 58283548--58283782 Score: 240
Period size: 27 Copynumber: 8.7 Consensus size: 27
58283538 TTTGTAACCA
58283548 AAATACCCTTGATTTGTAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATCG
** *
58283575 AAATACCCTTGACCTGTAAAATTACCG
1 AAATACCCTTGATTTGTAAAATTATCG
*
58283602 AAATA-CCTTCGACTTGTAAAATTATCG
1 AAATACCCTT-GATTTGTAAAATTATCG
* * * *
58283629 AAATACCCTCGATTTGTAAAGTTACCA
1 AAATACCCTTGATTTGTAAAATTATCG
* * *
58283656 AAACACCCTTGATTTGGAAAAGTATCG
1 AAATACCCTTGATTTGTAAAATTATCG
* *
58283683 AAATACCCTTAATTTGGAAAATTA-CAG
1 AAATACCCTTGATTTGTAAAATTATC-G
** *
58283710 AAATACCCTTGACTTTCAAAAATTATAG
1 AAATACCCTTGA-TTTGTAAAATTATCG
* * * *
58283738 AAATACCATTGCTTTGCAAAATTATTG
1 AAATACCCTTGATTTGTAAAATTATCG
*
58283765 AAATACCCTTGGTTTGTA
1 AAATACCCTTGATTTGTA
58283783 GATTTACCGA
Statistics
Matches: 171, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.03
27 142 0.83
28 24 0.14
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTATCG
Found at i:58283896 original size:27 final size:27
Alignment explanation
Indices: 58283832--58283923 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
58283822 TACCTTACTA
* * * *
58283832 GGTAAAAAGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
*
58283859 GGTAAAATGACCATAAAGCCCCTGTGG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * * *
58283886 GGTAAAGTGACCCTAATA-CCCCTATAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
58283913 GGTAAAATGAC
1 GGTAAAATGAC
58283924 AATTATGCCC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:58284150 original size:27 final size:27
Alignment explanation
Indices: 58284090--58284159 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
58284080 ACATTCACTA
58284090 TTTCTGGTGGCTTTGCCACAATTACTG
1 TTTCTGGTGGCTTTGCCACAATTACTG
* * * *
58284117 ATACTGGTGGCTTTGCCACATTTATTG
1 TTTCTGGTGGCTTTGCCACAATTACTG
**
58284144 TTTCTGGCAGCTTTGC
1 TTTCTGGTGGCTTTGC
58284160 TGCGATATTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (27 bp):
TTTCTGGTGGCTTTGCCACAATTACTG
Found at i:58287319 original size:27 final size:27
Alignment explanation
Indices: 58287260--58287411 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
58287250 TAAATTGTAC
*
58287260 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
58287288 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58287315 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
58287342 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
58287370 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58287397 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58287412 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:58287326 original size:55 final size:55
Alignment explanation
Indices: 58287260--58287411 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
58287250 TAAATTGTAC
58287260 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
58287315 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
58287370 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
58287412 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:58287374 original size:82 final size:82
Alignment explanation
Indices: 58287260--58287411 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
58287250 TAAATTGTAC
* *
58287260 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
58287325 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
58287342 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
58287407 GTGCG
66 GTGCG
58287412 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:58292539 original size:40 final size:40
Alignment explanation
Indices: 58292494--58293038 Score: 930
Period size: 40 Copynumber: 13.6 Consensus size: 40
58292484 CAAGCTCAAT
* * * * *
58292494 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292534 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
58292574 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
58292614 CGCCGTCGGGTCGTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292654 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58292694 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58292734 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292774 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292814 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292854 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292894 TGCCTTCGAGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58292934 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58292974 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58293014 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
58293039 CATTCAAATG
Statistics
Matches: 478, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 475 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:58300644 original size:20 final size:21
Alignment explanation
Indices: 58300601--58300646 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
58300591 ACTGCTTTGT
58300601 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
58300621 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
58300640 TATGGGC
1 TATGGGC
58300647 AAGGGCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:58305153 original size:55 final size:54
Alignment explanation
Indices: 58305065--58305316 Score: 252
Period size: 55 Copynumber: 4.7 Consensus size: 54
58305055 CATTAGGGTT
*
58305065 TAAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGG
* * * *
58305120 TAAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * *
58305175 TAGAGG-TCCCATGTGAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGG
1 TA-AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGG
* * *
58305228 CAAGGATACCATGTAAAACCATGTCAAGACATGGCAA-TGGTAAGTTTC--A-G
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * **
58305278 -AAGGATACCACGTAAGACCATGACAAGTTATGGCAATTG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTG
58305317 TGAGGTACCC
Statistics
Matches: 164, Mismatches: 25, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
49 31 0.19
50 3 0.02
51 1 0.01
52 4 0.02
53 39 0.24
54 12 0.07
55 71 0.43
56 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:58305272 original size:108 final size:110
Alignment explanation
Indices: 58305073--58305273 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
58305063 TTTAAGGATA
* * *
58305073 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
*
58305138 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGTAGAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGTAGAGGTC
* *
58305183 CCATGTGAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAA
*
58305245 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
58305274 TCAGAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGTAGAGGTC
Found at i:58305415 original size:23 final size:24
Alignment explanation
Indices: 58305389--58305439 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
58305379 AAGGTAAGGT
*
58305389 AAAGTAAGACGAGTT-ATGCTAAA
1 AAAGTAAGACAAGTTCATGCTAAA
*
58305412 AAAGTAAGACAAGTTCATGCTAGA
1 AAAGTAAGACAAGTTCATGCTAAA
58305436 AAAG
1 AAAG
58305440 CAAAGGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.49, C:0.10, G:0.22, T:0.20
Consensus pattern (24 bp):
AAAGTAAGACAAGTTCATGCTAAA
Found at i:58309003 original size:47 final size:47
Alignment explanation
Indices: 58308949--58309189 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
58308939 TTAGGATTTT
** * *
58308949 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58308996 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58309043 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58309090 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
58309137 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58309184 ATGTGA
1 ATGTGA
58309190 AATATGTATG
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58309049 original size:22 final size:22
Alignment explanation
Indices: 58308978--58309096 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
58308968 GTATATATGA
58308978 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
58309000 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
58309025 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
58309047 GATGAATGTG-AGCAT-GCATATATGT
1 GAT-AA-G-GCCGAATGGC-CA-ATGT
58309072 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
58309094 GAT
1 GAT
58309097 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:58309541 original size:37 final size:37
Alignment explanation
Indices: 58309397--58309540 Score: 234
Period size: 37 Copynumber: 3.9 Consensus size: 37
58309387 GAAATATATC
58309397 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
* *
58309434 CCGGGTAAGACCCGATGATTATGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
* *
58309471 CTGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
* *
58309508 CCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATT
58309541 TCGTTTGAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
Found at i:58312474 original size:27 final size:26
Alignment explanation
Indices: 58312403--58312477 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
58312393 AAACCCCTAG
*
58312403 TTGTAAAATTACCAAAGCACCCCCGAT
1 TTGTAAAATTACCAAA-TACCCCCGAT
* * *
58312430 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCCCGAT
58312457 TTGTAAAATTACCGAAATACC
1 TTGTAAAATTACC-AAATACC
58312478 ACTATAAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 33 0.82
28 5 0.12
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCCCGAT
Found at i:58312493 original size:27 final size:27
Alignment explanation
Indices: 58312471--58312736 Score: 329
Period size: 27 Copynumber: 9.9 Consensus size: 27
58312461 AAAATTACCG
* * * * *
58312471 AAATACCACTATAAGGTATAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTA
* * *
58312498 AAATACCCTTGTAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTA
*
58312525 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTA
* *
58312552 AAATA-CCCTAGTAAGGTAGAATTAC-C
1 AAATACCCCT-GTAGGGTAGAATTACTA
* * *
58312578 GAATACCCCTATAGAGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTA
*
58312605 AAATACCCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTA
* *
58312632 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTA
58312659 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTA
*
58312686 AAATACCCCTGTAGGGTAAAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTA
* *
58312713 CAATACCCCTGTAGGGTGGAATTA
1 AAATACCCCTGTAGGGTAGAATTA
58312737 TCGAGATACC
Statistics
Matches: 207, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 19 0.09
27 188 0.91
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTA
Found at i:58312521 original size:54 final size:54
Alignment explanation
Indices: 58312463--58312736 Score: 363
Period size: 54 Copynumber: 5.1 Consensus size: 54
58312453 CGATTTGTAA
* * * * * * *
58312463 AATTACCGAAATACCACTATAAGGTATAATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
* * *
58312517 AATTACCAAAATACCCTTGTAGGGTAGAATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCT-GTAGGGTAG
* *
58312571 AATTACC-GAATACCCCTATAGAGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
*
58312624 AATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
* * * * *
58312678 AATTACTAAAATACCCCTGTAGGGTAAAATTACTACAATACCCCTGTAGGGTGG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
58312732 AATTA
1 AATTA
58312737 TCGAGATACC
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 46 0.24
54 149 0.76
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (54 bp):
AATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
Found at i:58312692 original size:81 final size:81
Alignment explanation
Indices: 58312463--58312736 Score: 363
Period size: 81 Copynumber: 3.4 Consensus size: 81
58312453 CGATTTGTAA
* * * * * *
58312463 AATTACCGAAATACCACTATAAGGTATAATTACTGAAATACCCTTGTAAGGTAGAATTACCAAAA
1 AATTACCAAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAA
*
58312528 TACCCTTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * *
58312544 AATTACTAAAATA-CCCTAGTAAGGTAGAATTACCG-AATACCCCTATAGAGTAGAATTACTAAA
1 AATTACCAAAATACCCCTA-TAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAA
58312607 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
*
58312624 AATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAA
1 AATTACCAAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAA
*
58312689 TACCCCTGTAGGGTAA
66 TACCCCTGTAGGGTAG
* * * * *
58312705 AATTACTACAATACCCCTGTAGGGTGGAATTA
1 AATTACCAAAATACCCCTATAAGGTAGAATTA
58312737 TCGAGATACC
Statistics
Matches: 169, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 69 0.41
81 100 0.59
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (81 bp):
AATTACCAAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAA
TACCCCTGTAGGGTAG
Found at i:58313204 original size:6 final size:6
Alignment explanation
Indices: 58313195--58313291 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
58313185 ATTTTGTTAC
* * * *
58313195 CTGATA CTGATT CTGGTT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
58313244 CTGATT CTG-TCAC CTGATA CTGATT CTAATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
58313292 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.06
6 58 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:58313216 original size:31 final size:31
Alignment explanation
Indices: 58313172--58313282 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
58313162 TTGCATTCGC
*
58313172 ATTCTGATTTTTGATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
58313204 ATTCTGGTTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
58313235 ATTCTGATTCTGATTCTGTCACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
58313266 ATTCTAATTCTGATTCT
1 ATTCTGATTTTGATTCT
58313283 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 67 0.92
32 6 0.08
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:58319402 original size:40 final size:40
Alignment explanation
Indices: 58319354--58319620 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
58319344 GCAAACACAT
* *
58319354 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58319394 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58319434 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58319474 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58319514 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58319554 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58319594 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
58319621 ATCCAATGCT
Statistics
Matches: 221, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:58324258 original size:40 final size:40
Alignment explanation
Indices: 58324212--58324436 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
58324202 CTTGCACAAG
* * *
58324212 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58324252 GCCTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58324292 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* **
58324332 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTTGCATGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58324372 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58324413 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58324437 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 28 0.18
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58324307 original size:80 final size:78
Alignment explanation
Indices: 58324176--58324436 Score: 308
Period size: 80 Copynumber: 3.3 Consensus size: 78
58324166 CTCAAGTAAT
* * * * *
58324176 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGACTTAGCCCGGATATAGCT-CTTGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTC
*
58324240 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* * *
58324254 CTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAG-CTCTTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGT
*
58324319 CGCTAGCACAAATGC
64 CACTAGCACAAATGC
* * * * * *
58324334 CTTCGGGTCTTAGCCCGGATATAGCAACTTGCATGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGC-TCTTGCA-CAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
58324399 CACCTAGCACAAAAGC
64 CA-CTAGCACAAATGC
58324415 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58324437 CATTCGAATA
Statistics
Matches: 155, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATAGCTCTTGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTCA
CTAGCACAAATGC
Found at i:58326707 original size:55 final size:53
Alignment explanation
Indices: 58326640--58326873 Score: 228
Period size: 55 Copynumber: 4.4 Consensus size: 53
58326630 ATTAGTGTTT
*
58326640 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
58326695 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
58326750 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * * * *
58326803 AAGGATACCATCTAAAACCATGTCAAGACATGGAAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
*
58326852 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
58326874 AGAAGTCATG
Statistics
Matches: 146, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
49 19 0.13
52 7 0.05
53 38 0.26
54 11 0.08
55 67 0.46
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:58326846 original size:108 final size:110
Alignment explanation
Indices: 58326647--58326847 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
58326637 TTTAAGGATA
* * * *
58326647 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATCTAAAA
* *
58326712 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
* *
58326757 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATCTAAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATCTAAA
*
58326819 ACCATGTCAAGACATGGAAATGGTAAGTT
65 ACCATGTCAAGACATGGAAATGATAAGTT
58326848 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 6 0.07
110 27 0.33
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATCTAAAA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:58326892 original size:17 final size:17
Alignment explanation
Indices: 58326870--58326903 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58326860 CACGTAAGAC
58326870 CATGAGAAGTCATGGCA
1 CATGAGAAGTCATGGCA
58326887 CATGAGAAGTCATGGCA
1 CATGAGAAGTCATGGCA
58326904 ATGGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (17 bp):
CATGAGAAGTCATGGCA
Found at i:58327101 original size:16 final size:16
Alignment explanation
Indices: 58327080--58327110 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58327070 ATACATTTGA
58327080 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
58327096 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
58327111 ATTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:58339792 original size:18 final size:17
Alignment explanation
Indices: 58339765--58339799 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58339755 TACCAATACC
58339765 ATATCAACATCTATCAT
1 ATATCAACATCTATCAT
*
58339782 ATATACAACATTTATCAT
1 ATAT-CAACATCTATCAT
58339800 GCCATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATCAACATCTATCAT
Found at i:58340992 original size:42 final size:42
Alignment explanation
Indices: 58340876--58341039 Score: 213
Period size: 42 Copynumber: 3.9 Consensus size: 42
58340866 TACCATACCA
* * *
58340876 ATGCCATATCCCAGATATGGTCTTACACGTAACCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
58340918 ATGCCAATAGCCCAGTTATGGTCTTACGCGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
** *
58340961 ATGCCATATCTTAGATATGGTCTTACACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
58341003 ATGCCATATCTCAGATATGGTCTTACAC-ATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
58341040 GAAACCCCAA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 70 0.65
43 36 0.34
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:58341430 original size:49 final size:49
Alignment explanation
Indices: 58341356--58341456 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
58341346 GTGACAGCCC
* * *
58341356 TAATGTGACCCTAGTCAGAAAGTGGTTTCGGGACCACAAAACTGAGTCA
1 TAATGTGACCCTAATCAGAAAGTGGTTTCGAGACCACAAAACCGAGTCA
* *
58341405 TAATGTGACCCTAATCGGAATGTGGTTTCGAGACCACAAAACCGAGTCA
1 TAATGTGACCCTAATCAGAAAGTGGTTTCGAGACCACAAAACCGAGTCA
58341454 TAA
1 TAA
58341457 AAATAATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (49 bp):
TAATGTGACCCTAATCAGAAAGTGGTTTCGAGACCACAAAACCGAGTCA
Found at i:58342295 original size:40 final size:40
Alignment explanation
Indices: 58342181--58342352 Score: 172
Period size: 40 Copynumber: 4.3 Consensus size: 40
58342171 GATAACCGGA
* * *
58342181 CTAAGATCTGAAGGCATTCGTGCGAGTTGCTATATTCGGG
1 CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATTCGGG
* * * *
58342221 CTATGTCCCGAAGGCATTTA-TGCTAG-TGATTATATTCGGG
1 CTAAGACCCGAAGGCA-TTAGTGCGAGTTG-CTATATTCGGG
* *
58342261 CTAAGACCCGAAGGCATTAGTGTGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATTCGGG
** * *
58342301 CTAAGACCCGAAGGCATTTTTGCGAGTTGTTATA-TCTGG
1 CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATTCGGG
58342340 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
58342353 ATACTTGAGT
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 19 0.18
40 84 0.78
41 4 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATTCGGG
Found at i:58342314 original size:80 final size:79
Alignment explanation
Indices: 58342181--58342352 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 79
58342171 GATAACCGGA
* * * * * * *
58342181 CTAAGATCTGAAGGCATTCGTGCGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
58342246 G-TGATTATATTCGGG
66 GTTG-TTATA-TCGGG
* *
58342261 CTAAGACCCGAAGGCATTAGTGTGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTTTGCGA
1 CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
*
58342326 GTTGTTATATCTGG
66 GTTGTTATATCGGG
58342340 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
58342353 ATACTTGAGT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 15 0.19
80 62 0.77
81 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (79 bp):
CTAAGACCCGAAGGCATTAGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
GTTGTTATATCGGG
Found at i:58349409 original size:40 final size:40
Alignment explanation
Indices: 58349291--58349427 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
58349281 CAGATGATAA
* * * *
58349291 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
58349331 TCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
58349371 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58349411 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
58349428 ATACTTGAGT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.19
40 62 0.77
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:58350942 original size:30 final size:29
Alignment explanation
Indices: 58350906--58351106 Score: 187
Period size: 30 Copynumber: 6.9 Consensus size: 29
58350896 AAGAAACATT
* * *
58350906 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
58350936 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
58350966 ATCA-ATATTAGTAACAGAATCAAAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
***
58350996 ATCAGAA-T-TAGGTG-A-CAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
58351021 ATCAGAATTAGTAACAGAATCAGAATCCGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
*
58351051 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* * *
58351081 ATTAGAATTACTGACAGAATCAGAAT
1 ATCAGAATT-GTAACAGAATCAGAAT
58351107 ATGAATGCAA
Statistics
Matches: 142, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
25 16 0.11
26 2 0.01
27 3 0.02
28 3 0.02
29 3 0.02
30 111 0.78
31 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:58351106 original size:6 final size:6
Alignment explanation
Indices: 58350927--58351088 Score: 138
Period size: 6 Copynumber: 26.8 Consensus size: 6
58350917 AACCAAAATG
*
58350927 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
58350975 AGTAA-C AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
58351024 AGAATT AGTAA-C AGAATC AGAATC CGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
58351072 AGAATC AGAATT AGAAT
1 AGAATC AGAATC AGAAT
58351089 TACTGACAGA
Statistics
Matches: 126, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
5 10 0.08
6 106 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:58351261 original size:27 final size:26
Alignment explanation
Indices: 58351224--58351289 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
58351214 AGCATGGCTG
*
58351224 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
58351250 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
58351277 CCAGAATCAGATA
1 CCAGAA-CAGATA
58351290 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:58351294 original size:27 final size:27
Alignment explanation
Indices: 58351224--58351297 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
58351214 AGCATGGCTG
* *
58351224 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
58351250 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
58351277 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
58351298 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:58351304 original size:27 final size:27
Alignment explanation
Indices: 58351248--58351305 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
58351238 GTGACAGAGT
* * *
58351248 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
58351275 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
58351302 CACC
1 CACC
58351306 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:58351510 original size:22 final size:22
Alignment explanation
Indices: 58351462--58351520 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58351452 GTAAATACAT
*
58351462 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
58351484 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
58351506 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
58351521 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:58351690 original size:27 final size:26
Alignment explanation
Indices: 58351608--58351690 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
58351598 TCGATCGGTA
* *
58351608 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
58351634 ATAAAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
58351661 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
58351688 AAC
1 AAC
58351691 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.14
27 43 0.86
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:58351905 original size:27 final size:28
Alignment explanation
Indices: 58351843--58351906 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
58351833 TAGTCACTTG
*
58351843 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
58351871 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
58351897 CCCACAAGGG
1 CCCACAAGGG
58351907 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:58351916 original size:27 final size:27
Alignment explanation
Indices: 58351886--58352135 Score: 257
Period size: 27 Copynumber: 9.3 Consensus size: 27
58351876 AGGGCAAAAT
* * *
58351886 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58351913 GGTAATTATACCCTTCAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58351940 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58351967 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58351994 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58352021 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
58352048 GAAAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
58352075 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58352102 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58352129 AGTAATT
1 GGTAATT
58352136 TCACAATCAA
Statistics
Matches: 189, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58351952 original size:54 final size:54
Alignment explanation
Indices: 58351889--58352135 Score: 300
Period size: 54 Copynumber: 4.6 Consensus size: 54
58351879 GCAAAATGGT
* * * * * *
58351889 AATTTTACCCCACAAGGGTATCTCGGTAATTATACCCT-TCAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTAT-AGGGGTATTTCGGA
* * * *
58351943 ATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGGGGTATTTCGGA
* * *
58351997 AATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGAA
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGA
* * * *
58352051 AATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCAGA
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGA
*
58352105 AATTCTACCCTACAGGGGTATTTCAGTAATT
1 AATTCTACCCTACAAGGGTATTTCAGTAATT
58352136 TCACAATCAA
Statistics
Matches: 169, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 167 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (54 bp):
AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGA
Found at i:58352177 original size:27 final size:27
Alignment explanation
Indices: 58352147--58352495 Score: 432
Period size: 27 Copynumber: 12.9 Consensus size: 27
58352137 CACAATCAAT
58352147 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
58352174 GGTAAAACGATAATTTTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
* * * *
58352201 GGTAAACCAGTAATTCTATAAATCAAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* **
58352228 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
58352255 GGTAAAACGATAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
58352282 GGTAAAATGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
58352309 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
58352336 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
58352363 GATAAAACGGTAATTCTGTAAATTGAA
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
58352390 GGTAAAACGGTAATTCTGTAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * **
58352417 GGTAAAATGGTAATTTTAAAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
58352444 GGTAAAACGGTAATTCTATAAATCAAC
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
58352471 GGTAAAATGGTAATTCTGTAAATCG
1 GGTAAAACGGTAATTCTGTAAATCG
58352496 GGAGTACTTT
Statistics
Matches: 278, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 274 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTGTAAATCGAG
Found at i:58354555 original size:30 final size:30
Alignment explanation
Indices: 58354521--58354608 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
58354511 TGAGAATGAG
* *
58354521 AATCAAAATCAGTAACAGAATCAGAATCAA
1 AATCAAAATTAGTAACAGAATCAAAATCAA
*
58354551 AATCAATATTAGTAACAGAATCAAAATCAA
1 AATCAAAATTAGTAACAGAATCAAAATCAA
* *
58354581 AATCAGAATTAGGTGACAGAATCAAAAT
1 AATCAAAATTA-GTAACAGAATCAAAAT
58354609 TAGAATCAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 36 0.71
31 15 0.29
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (30 bp):
AATCAAAATTAGTAACAGAATCAAAATCAA
Found at i:58354603 original size:31 final size:31
Alignment explanation
Indices: 58354531--58354617 Score: 115
Period size: 30 Copynumber: 2.8 Consensus size: 31
58354521 AATCAAAATC
*
58354531 AGTAACAGAATCAGAATCAAAATCA-ATATT
1 AGTAACAGAATCAAAATCAAAATCAGATATT
58354561 AGTAACAGAATCAAAATCAAAATCAGA-ATT
1 AGTAACAGAATCAAAATCAAAATCAGATATT
* * *
58354591 AGGTGACAGAATCAAAATTAGAATCAG
1 A-GTAACAGAATCAAAATCAAAATCAG
58354618 TAACAGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 28 0.55
31 23 0.45
ACGTcount: A:0.53, C:0.13, G:0.14, T:0.21
Consensus pattern (31 bp):
AGTAACAGAATCAAAATCAAAATCAGATATT
Found at i:58354613 original size:25 final size:24
Alignment explanation
Indices: 58354575--58354687 Score: 77
Period size: 25 Copynumber: 4.6 Consensus size: 24
58354565 ACAGAATCAA
* *
58354575 AATCAAAATCAGAATTAGGTGACAG
1 AATCAAAATCAGAATCA-GTAACAG
*
58354600 AATCAAAATTAGAATCAGTAACAG
1 AATCAAAATCAGAATCAGTAACAG
** * *
58354624 AATCAGTATTAGTAA-CAG-AATTAG
1 AATCAAAATCAG-AATCAGTAA-CAG
* *
58354648 AATCAAAATCAGAATTACGTGACAG
1 AATCAAAATCAGAATCA-GTAACAG
* *
58354673 AATCAGAACCAGAAT
1 AATCAAAATCAGAAT
58354688 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
23 4 0.06
24 31 0.45
25 33 0.48
26 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (24 bp):
AATCAAAATCAGAATCAGTAACAG
Found at i:58354628 original size:24 final size:24
Alignment explanation
Indices: 58354492--58354662 Score: 91
Period size: 24 Copynumber: 7.1 Consensus size: 24
58354482 AAGAAACATT
** * *
58354492 ATCAGAATTGGAACCAAAATGAGA
1 ATCAGAATCAGAATCAAAATTAGA
* * * *
58354516 ATGAGAATCAAAATCAGTAA-CAGA
1 ATCAGAATCAGAATCA-AAATTAGA
* *
58354540 ATCAGAATCAAAATCAATATTAGTA
1 ATCAGAATCAGAATCAAAATTAG-A
* *
58354565 A-CAGAATCAAAATCAAAATCAGA
1 ATCAGAATCAGAATCAAAATTAGA
* *
58354588 ATTAG-GTGACAGAATCAAAATTAGA
1 ATCAGAAT--CAGAATCAAAATTAGA
**
58354613 ATCAGTAA-CAGAATCAGTATTAGTA
1 ATCAG-AATCAGAATCAAAATTAG-A
* *
58354638 A-CAGAATTAGAATCAAAATCAGA
1 ATCAGAATCAGAATCAAAATTAGA
58354661 AT
1 AT
58354663 TACGTGACAG
Statistics
Matches: 111, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
23 8 0.07
24 79 0.71
25 24 0.22
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAATCAGAATCAAAATTAGA
Found at i:58354628 original size:73 final size:73
Alignment explanation
Indices: 58354537--58354677 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
58354527 AATCAGTAAC
*
58354537 AGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTAGGTGACAGAA
1 AGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTACGTGACAGAA
58354602 TCAAAATT
66 TCAAAATT
* * * *
58354610 AGAATCAGTAA-CAGAATCAGTATTAGTAACAGAATTAGAATCAAAATCAGAATTACGTGACAGA
1 AGAATCAG-AATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTACGTGACAGA
58354674 ATCA
65 ATCA
58354678 GAACCAGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 60 0.97
74 2 0.03
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (73 bp):
AGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTACGTGACAGAA
TCAAAATT
Found at i:58354649 original size:6 final size:6
Alignment explanation
Indices: 58354513--58354662 Score: 69
Period size: 6 Copynumber: 24.8 Consensus size: 6
58354503 AACCAAAATG
* * * *
58354513 AGAATG AGAATC AAAATC AGTAA-C AGAATC AGAATC AAAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * * * *
58354561 AGTAA-C AGAATC AAAATC AAAATC AGAATT AG-GTGAC AGAATC AAAATT
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
58354610 AGAATC AGTAA-C AGAATC AGTATT AGTAA-C AGAATT AGAATC AAAATC
1 AGAATC AG-AATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
58354658 AGAAT
1 AGAAT
58354663 TACGTGACAG
Statistics
Matches: 107, Mismatches: 24, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
5 10 0.09
6 87 0.81
7 8 0.07
8 2 0.02
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:58354660 original size:18 final size:18
Alignment explanation
Indices: 58354492--58354664 Score: 61
Period size: 18 Copynumber: 9.6 Consensus size: 18
58354482 AAGAAACATT
* *
58354492 ATCAGAATTGGAACCAAA
1 ATCAGAATTAGAATCAAA
* *
58354510 ATGAGAATGAGAATCAAA
1 ATCAGAATTAGAATCAAA
* *
58354528 ATCAGTAA-CAGAATCAGA
1 ATCAG-AATTAGAATCAAA
* * * *
58354546 ATCAAAATCA-ATATTAGTA
1 ATCAGAATTAGA-ATCA-AA
* *
58354565 A-CAGAATCAAAATCAAA
1 ATCAGAATTAGAATCAAA
* *
58354582 ATCAGAATTAG-GTGACAGA
1 ATCAGAATTAGAAT--CAAA
* *
58354601 ATCAAAATTAGAATCAGTA
1 ATCAGAATTAGAATCA-AA
* * * *
58354620 A-CAGAATCAGTATTAGTA
1 ATCAGAATTAGAATCA-AA
58354638 A-CAGAATTAGAATCAAA
1 ATCAGAATTAGAATCAAA
58354655 ATCAGAATTA
1 ATCAGAATTA
58354665 CGTGACAGAA
Statistics
Matches: 116, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
17 8 0.07
18 87 0.75
19 20 0.17
20 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.21
Consensus pattern (18 bp):
ATCAGAATTAGAATCAAA
Found at i:58354687 original size:73 final size:72
Alignment explanation
Indices: 58354527--58354687 Score: 216
Period size: 73 Copynumber: 2.2 Consensus size: 72
58354517 TGAGAATCAA
58354527 AATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTA
1 AATCAG-AACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTA
*
58354592 GGTGACAG
65 CGTGACAG
* * * * * *
58354600 AATCAAAATTAGAATCAGTAA-CAGAATCAGTATTAGTAACAGAATTAGAATCAAAATCAGAATT
1 AATCAGAA-CAGAATCAG-AATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATT
58354664 ACGTGACAG
64 ACGTGACAG
58354673 AATCAGAACCAGAAT
1 AATCAGAA-CAGAAT
58354688 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
72 2 0.03
73 72 0.95
74 2 0.03
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (72 bp):
AATCAGAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAGAATTAC
GTGACAG
Found at i:58354842 original size:27 final size:27
Alignment explanation
Indices: 58354804--58354869 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
58354794 AGCATGGCTG
*
58354804 CCAGAAT-AGATATCGTGACAGAGTCA
1 CCAGAATCAGATATCGTGACAGAGCCA
* *
58354830 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATCGTGACAGAGCCA
58354857 CCAGAATCAGATA
1 CCAGAATCAGATA
58354870 ATGAGGCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 2 0.06
26 4 0.12
27 26 0.76
28 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATATCGTGACAGAGCCA
Found at i:58354877 original size:27 final size:27
Alignment explanation
Indices: 58354822--58354877 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
58354812 GATATCGTGA
* * *
58354822 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGAGG
58354849 CAGAGCCACCAGA-ATCAGATAATGAGG
1 CAGAGCCACCAGATA-CAGATAATGAGG
58354876 CA
1 CA
58354878 AACCCACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGAGG
Found at i:58354884 original size:27 final size:27
Alignment explanation
Indices: 58354828--58354885 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
58354818 GTGACAGAGT
* * * *
58354828 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGAGGCAAACC
58354855 CACCAGA-ATCAGATAATGAGGCAAACC
1 CACCAGATA-CAGATAATGAGGCAAACC
58354882 CACC
1 CACC
58354886 TAATAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (27 bp):
CACCAGATACAGATAATGAGGCAAACC
Found at i:58355090 original size:22 final size:22
Alignment explanation
Indices: 58355042--58355100 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58355032 GTAAATACGT
*
58355042 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
58355064 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
58355086 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
58355101 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:58355232 original size:27 final size:28
Alignment explanation
Indices: 58355191--58355270 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
58355181 ATCGGTCAAC
* *
58355191 AGATATTGTGACAGAGTCACCAGATA-A-
1 AGATATTGTGGCAGAGCCACCAGA-ACAG
58355218 AGATATTGTGGCAGAGCCACCAGAACAG
1 AGATATTGTGGCAGAGCCACCAGAACAG
* *
58355246 AGAT-TTGTGGCATAACCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
58355271 GCTTCCTTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.89
28 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (28 bp):
AGATATTGTGGCAGAGCCACCAGAACAG
Found at i:58355318 original size:16 final size:16
Alignment explanation
Indices: 58355297--58355327 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58355287 ATCCCAACCC
*
58355297 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
58355313 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
58355328 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:58355498 original size:27 final size:27
Alignment explanation
Indices: 58355468--58355689 Score: 232
Period size: 27 Copynumber: 8.3 Consensus size: 27
58355458 GGGGAAAAAT
* * * *
58355468 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTATAAGGGTATTTC
*
58355495 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
*
58355522 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * * *
58355549 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTC
*
58355576 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
58355603 AGTAATTCTACCCTAT-GGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
58355629 AGAAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
*** * *
58355656 AAAAATTCTACCCTACAGGGGTATTT-
1 GGTAATTCTACCCTATAAGGGTATTTC
58355682 GAGTAATT
1 G-GTAATT
58355690 TCACAATCAA
Statistics
Matches: 167, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.14
27 143 0.86
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTATAAGGGTATTTC
Found at i:58355612 original size:81 final size:81
Alignment explanation
Indices: 58355470--58355689 Score: 264
Period size: 81 Copynumber: 2.7 Consensus size: 81
58355460 GGAAAAATGG
* * * * * * *
58355470 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
58355535 TATAAGGGTATTTC-GA
66 TAT-AGGGTATTTCAGA
* *
58355551 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
*
58355616 TATGGGGTATTTCAGA
66 TATAGGGTATTTCAGA
* *** * * *
58355632 -AATTCTACCCTATAGGGGTATTTCAAAAATTCTACCCTACAGGGGTATTTGAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATT
58355690 TCACAATCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
80 58 0.49
81 61 0.51
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
TATAGGGTATTTCAGA
Found at i:58355663 original size:107 final size:108
Alignment explanation
Indices: 58355484--58355689 Score: 317
Period size: 107 Copynumber: 1.9 Consensus size: 108
58355474 TTTACCCCAC
* * * *
58355484 AAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTC
1 AAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCTATAAGGGTATTTC
* *
58355549 GATAATTCTACCCTACAGGGGTATTTTG-GTAATTCTATCCTAT
66 AAAAATTCTACCCTACAGGGGTA-TTTGAGTAATTCTATCCTAT
* *
58355592 AAGGGTATTTCAGTAATTCTACCCTAT-GGGGTATTTCAGAAATTCTACCCTATAGGGGTATTTC
1 AAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCTATAAGGGTATTTC
58355656 AAAAATTCTACCCTACAGGGGTATTTGAGTAATT
66 AAAAATTCTACCCTACAGGGGTATTTGAGTAATT
58355690 TCACAATCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 4 0.04
107 60 0.67
108 25 0.28
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (108 bp):
AAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCTATAAGGGTATTTC
AAAAATTCTACCCTACAGGGGTATTTGAGTAATTCTATCCTAT
Found at i:58355724 original size:27 final size:27
Alignment explanation
Indices: 58355694--58356264 Score: 668
Period size: 27 Copynumber: 21.2 Consensus size: 27
58355684 GTAATTTCAC
* *
58355694 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
58355721 AATCAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
58355748 AA-CTAAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* ** * * *
58355775 AATCTAGGGTAAAATAGCAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
58355802 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
58355829 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
58355856 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
58355883 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
58355910 AA-CTAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
58355936 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
58355963 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
58355990 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
58356017 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
58356044 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
58356071 AA-CTAAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
58356098 AATCGAGGGTAAAACGATAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTATA
58356125 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
58356152 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
58356179 AATTGAGGGAAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
58356206 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
58356233 AATCAAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
58356260 AATCG
1 AATCG
58356265 GGAGTACTTT
Statistics
Matches: 470, Mismatches: 63, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
26 28 0.06
27 437 0.93
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:58363803 original size:21 final size:20
Alignment explanation
Indices: 58363775--58363813 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
58363765 GCATGTGTTT
*
58363775 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTAATAGATTA
*
58363795 TGAATGTTTGTTAATAGAT
1 TGAA-GTTTCTTAATAGAT
58363814 ATACAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:58365071 original size:14 final size:14
Alignment explanation
Indices: 58365052--58365101 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
58365042 TGAATGAGTA
58365052 AAACATGAGATAGT
1 AAACATGAGATAGT
* *
58365066 AAACATGCTAG-TTGA
1 AAACATG--AGATAGT
58365081 AAACATGAGATAGT
1 AAACATGAGATAGT
58365095 AAACATG
1 AAACATG
58365102 CTAGTTGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 16 0.55
15 9 0.31
16 2 0.07
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.22
Consensus pattern (14 bp):
AAACATGAGATAGT
Found at i:58365093 original size:29 final size:29
Alignment explanation
Indices: 58365051--58365108 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
58365041 TTGAATGAGT
58365051 AAAACATGAGATAGTAAACATGCTAGTTG
1 AAAACATGAGATAGTAAACATGCTAGTTG
58365080 AAAACATGAGATAGTAAACATGCTAGTTG
1 AAAACATGAGATAGTAAACATGCTAGTTG
58365109 TTGGAATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (29 bp):
AAAACATGAGATAGTAAACATGCTAGTTG
Found at i:58375289 original size:46 final size:46
Alignment explanation
Indices: 58375232--58375407 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
58375222 TATTTGGGCA
58375232 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
* *** * ** *
58375278 TCCAAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAATTAG-GCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-ACTTATG-GATGCGAGCG
*
58375325 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAG-G
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG-AGCG
* *
58375371 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
58375408 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 3 0.03
46 68 0.63
47 34 0.31
48 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
Found at i:58375387 original size:93 final size:93
Alignment explanation
Indices: 58375228--58375399 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
58375218 GGGATATTTG
*
58375228 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGCCCAAACTCGTTGAG
58375293 TTGAGTCTGAGTTCGAGAGATGTAATTA
66 TTGAGTCTGAGTTCGAGAGATGTAATTA
* * *
58375321 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAG-GCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG-AGCGCCCAAACTCGTTGA
58375385 GTTGAGTCTGAGTTC
65 GTTGAGTCTGAGTTC
58375400 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGCCCAAACTCGTTGAG
TTGAGTCTGAGTTCGAGAGATGTAATTA
Found at i:58387328 original size:40 final size:40
Alignment explanation
Indices: 58387284--58387386 Score: 145
Period size: 40 Copynumber: 2.5 Consensus size: 40
58387274 CGACAATTTA
* *
58387284 GCTATGTATGGCACTTAATGTGCGACTT-GAGATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGC-AATTCGAGATAGCTTCG
*
58387324 GCTATGTATGGCACTTAGTGTTCAATTCGAGATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGCAATTCGAGATAGCTTCG
*
58387364 GCTATGTATTAGCACTTAGTGTG
1 GCTATGTA-TGGCACTTAGTGTG
58387387 TTAGAATTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 41 0.73
41 12 0.21
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
GCTATGTATGGCACTTAGTGTGCAATTCGAGATAGCTTCG
Found at i:58397281 original size:27 final size:27
Alignment explanation
Indices: 58397251--58397303 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
58397241 GACCCCAGTT
* *
58397251 TGTAAAATCACTGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
58397278 TGTAAAATGACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
58397304 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:58400070 original size:19 final size:19
Alignment explanation
Indices: 58400046--58400083 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
58400036 TGGGCCACGT
58400046 TGGGCCTAGATGGG-TCGTG
1 TGGGCCTA-ATGGGCTCGTG
58400065 TGGGCCTAATGGGCTCGTG
1 TGGGCCTAATGGGCTCGTG
58400084 GGCCTCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.11, C:0.18, G:0.45, T:0.26
Consensus pattern (19 bp):
TGGGCCTAATGGGCTCGTG
Found at i:58400086 original size:17 final size:18
Alignment explanation
Indices: 58400046--58400088 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58400036 TGGGCCACGT
58400046 TGGGCCTAGATGGGTCGTG
1 TGGGCCTAGATGGGTCG-G
58400065 TGGGCCTA-ATGGGCTC-G
1 TGGGCCTAGATGGG-TCGG
58400082 TGGGCCT
1 TGGGCCT
58400089 CACACTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.09, C:0.21, G:0.44, T:0.26
Consensus pattern (18 bp):
TGGGCCTAGATGGGTCGG
Found at i:58402413 original size:21 final size:21
Alignment explanation
Indices: 58402389--58402442 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
58402379 ACTCCCTTTG
*
58402389 ATGTCGCGACATAAGACTACT
1 ATGTCGTGACATAAGACTACT
58402410 ATGTCGTGACATAAGACTACT
1 ATGTCGTGACATAAGACTACT
58402431 ATGTCGTGACAT
1 ATGTCGTGACAT
58402443 CGACTATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
ATGTCGTGACATAAGACTACT
Found at i:58407534 original size:19 final size:19
Alignment explanation
Indices: 58407499--58407536 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
58407489 GTGTGGAGCC
*
58407499 CACGAGCCCATTGGACCCA
1 CACGAGCCCATTCGACCCA
58407518 CACGA-CCCATTTCGACCCA
1 CACGAGCCCA-TTCGACCCA
58407537 ACATGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.26, C:0.45, G:0.16, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTCGACCCA
Found at i:58408400 original size:47 final size:47
Alignment explanation
Indices: 58408334--58408858 Score: 843
Period size: 47 Copynumber: 11.1 Consensus size: 47
58408324 GAAATGATAG
58408334 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58408381 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
58408430 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58408477 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58408524 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58408571 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
58408620 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58408667 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58408714 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58408761 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * * *
58408808 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58408855 TAAG
1 TAAG
58408859 TCCCGAAGGG
Statistics
Matches: 452, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 359 0.79
49 93 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:58408613 original size:143 final size:142
Alignment explanation
Indices: 58408334--58408858 Score: 838
Period size: 143 Copynumber: 3.7 Consensus size: 142
58408324 GAAATGATAG
*
58408334 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
58408399 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
*
58408464 TGTATAT-GTGTGA
129 TGTATATATTGTGA
*
58408477 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
58408542 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
58408607 TATATATATGTGA
131 TATATAT-TGTGA
* *
58408620 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
58408685 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
58408750 TATATA-TGTGA
131 TATATATTGTGA
* *** * * * * *
58408761 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* * *
58408826 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
58408859 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 19, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
141 141 0.39
143 220 0.61
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (142 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATTGTGA
Done.