Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold49
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: 1668912
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 42860 characters in sequence are not A, C, G, or T
File 8 of 9
Found at i:1266708 original size:20 final size:20
Alignment explanation
Indices: 1266661--1266710 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
1266651 TTTACCCAGA
*
1266661 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCTGCAT
1266681 TG-ATCGATACATTGCT-CAT
1 TGTATCGATACATT-CTGCAT
1266700 TGTATCGATAC
1 TGTATCGATAC
1266711 GATGTATCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTCTGCAT
Found at i:1269088 original size:51 final size:51
Alignment explanation
Indices: 1269029--1269144 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
1269019 CATCTCGGGA
* **
1269029 ATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTCTTAATCAGGG
1 ATACTCCAACCCCGATTCCATTTCCAAAACATCAATTTTTCACAATCAGGG
* ** * * **
1269080 ATACTCCAACTCCGATTTTATTTTCAAAATATCAATTTTTCACAATTGGGG
1 ATACTCCAACCCCGATTCCATTTCCAAAACATCAATTTTTCACAATCAGGG
*
1269131 ATACTCTAACCCCG
1 ATACTCCAACCCCG
1269145 TTATTTCATC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (51 bp):
ATACTCCAACCCCGATTCCATTTCCAAAACATCAATTTTTCACAATCAGGG
Found at i:1269160 original size:28 final size:27
Alignment explanation
Indices: 1269127--1269199 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
1269117 TTTCACAATT
*
1269127 GGGGATACTCTAACCCCGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
1269153 TCGGGGATACTCCAACCCCGTTATTTTCGA
1 --GGGGATACTCCAACCCCGTTATTTTC-A
1269183 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1269200 AGCTTTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 37 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:1269273 original size:28 final size:29
Alignment explanation
Indices: 1269234--1269310 Score: 106
Period size: 28 Copynumber: 2.7 Consensus size: 29
1269224 TTTTTTCATA
*
1269234 ATCGGAGG-TACTCCAACCCCGTTA-TTTC
1 ATCGG-GGATACTCTAACCCCGTTATTTTC
1269262 ATCGGGGATACTCTAACCCCGTTATTTTC
1 ATCGGGGATACTCTAACCCCGTTATTTTC
*
1269291 A-AGGGGATACTCTAACCCCG
1 ATCGGGGATACTCTAACCCCG
1269311 ATTTTATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.04
28 38 0.84
29 5 0.11
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (29 bp):
ATCGGGGATACTCTAACCCCGTTATTTTC
Found at i:1269355 original size:51 final size:50
Alignment explanation
Indices: 1269293--1269462 Score: 159
Period size: 51 Copynumber: 3.3 Consensus size: 50
1269283 TTATTTTCAA
* *
1269293 GGGGATACTCTAACCCCGATTTTATTTCTAAAATACCAATCTTCCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAATATCGAT-TTCCACAATC
* * *
1269344 GGGGATACTCTAACTCTGATTTTATTT-TCAAAATATTGATTTCTCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCT-AAAATATCGATTTC-CACAATC
** *
1269395 GGGGGATACT-TCAACCCCG-GCTTATTTCT-AAATCATCGATTTTTCACAATC
1 -GGGGATACTCT-AACCCCGATTTTATTTCTAAAAT-ATCGA-TTTCCACAATC
* *
1269446 GAGGATACTCCAACCCC
1 GGGGATACTCTAACCCC
1269463 ATTATTTTCG
Statistics
Matches: 98, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
50 22 0.22
51 58 0.59
52 18 0.18
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (50 bp):
GGGGATACTCTAACCCCGATTTTATTTCTAAAATATCGATTTCCACAATC
Found at i:1269370 original size:110 final size:108
Alignment explanation
Indices: 1269077--1269357 Score: 363
Period size: 110 Copynumber: 2.6 Consensus size: 108
1269067 TTCTTAATCA
* * *
1269077 GGGATACTCCAACTCCGATTTTATTT-TCAAAATATCAATTTTTCACAATTGGGGATACTCTAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAAATATCAATTTTTCACAATCGGGGATACTCTAAC
*
1269141 CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAG
66 CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCAAG
* * * * *
1269184 GGGATACTCCAACCCC-AGCTTTATATCTAAAAATATTGATTTTTTTCATAATCGGAGG-TACTC
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAAATA-TCA-ATTTTTCACAATCGG-GGATACTC
* *
1269247 CAACCCCGTTATTTCATCGGGGATACTCTAACCCCGTTATTTTCAAG
62 TAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCAAG
* * * *
1269294 GGGATACTCTAACCCCGATTTTATTTCT-AAAATACCAATCTTCCACAATCGGGGATACTCTAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAAATATCAATTTTTCACAATCGGGGATACTCTAAC
1269358 TCTGATTTTA
Statistics
Matches: 146, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
106 3 0.02
107 40 0.27
108 8 0.05
109 8 0.05
110 84 0.58
111 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (108 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAAATATCAATTTTTCACAATCGGGGATACTCTAAC
CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCAAG
Found at i:1269612 original size:79 final size:78
Alignment explanation
Indices: 1269416--1269614 Score: 224
Period size: 79 Copynumber: 2.5 Consensus size: 78
1269406 CAACCCCGGC
* * *
1269416 TTATTTCTAAATCA-TCGATTTTTCACAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGAT
1 TTATTTCTAAA-CACT-GATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGAGGGAAT
1269480 ACTCCAACCCTGATT
64 ACTCCAACCCTGATT
* * * * * **
1269495 TTATTTTCAAAATACT-AATTTTCTATAATCAAGAATACTCCAACCCTGTTATTTCCGAGGGAAT
1 TTA-TTTCTAAACACTGATTTTTC-ATAATCGAGGATACTCCAACCCCATTATTTCCGAGGGAAT
1269559 ACTCCAAACCC-GATT
64 ACTCC-AACCCTGATT
*
1269574 TTATTTCTAGAACACTGATTTTTCATAATCGGGGATACTCC
1 TTATTTCTA-AACACTGATTTTTCATAATCGAGGATACTCC
1269615 GGCCCCGTTG
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
78 11 0.11
79 68 0.69
80 19 0.19
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (78 bp):
TTATTTCTAAACACTGATTTTTCATAATCGAGGATACTCCAACCCCATTATTTCCGAGGGAATAC
TCCAACCCTGATT
Found at i:1274594 original size:18 final size:18
Alignment explanation
Indices: 1274568--1274602 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1274558 CACATTTTTG
*
1274568 CCTTTATGTATCGATACT
1 CCTTCATGTATCGATACT
1274586 CCTTCATGTATCGATAC
1 CCTTCATGTATCGATAC
1274603 AAGGTCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (18 bp):
CCTTCATGTATCGATACT
Found at i:1280702 original size:3 final size:3
Alignment explanation
Indices: 1280646--1280691 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
1280636 TGCGGCACAG
*
1280646 ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1280692 TTGTTTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:1281773 original size:18 final size:18
Alignment explanation
Indices: 1281727--1281776 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
1281717 TTCAAATAAG
*
1281727 TAAATTTTTAAATTTTTA
1 TAAATTTTTAATTTTTTA
1281745 TAATATTTTTAATTTTTTA
1 TAA-ATTTTTAATTTTTTA
*
1281764 TTAATTTTTAATT
1 TAAATTTTTAATT
1281777 ATATTAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TAAATTTTTAATTTTTTA
Found at i:1282283 original size:17 final size:17
Alignment explanation
Indices: 1282244--1282313 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 17
1282234 ATTAGATAAT
1282244 TTAAATAAAAATATTAAA
1 TTAAATAAAAA-ATTAAA
*
1282262 TTTAAA-AAATAAATTTAA
1 -TTAAATAAA-AAATTAAA
1282280 TTAAATAAAAAATTAAA
1 TTAAATAAAAAATTAAA
**
1282297 TTTATTTAAAAAATTAA
1 -TTAAATAAAAAATTAA
1282314 TCATTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 12 0.27
18 25 0.57
19 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAATAAAAAATTAAA
Found at i:1282290 original size:21 final size:22
Alignment explanation
Indices: 1282264--1282306 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1282254 ATATTAAATT
1282264 TAAAAAA-TAAATTTAATTAAA
1 TAAAAAATTAAATTTAATTAAA
*
1282285 TAAAAAATTAAATTTATTTAAA
1 TAAAAAATTAAATTTAATTAAA
1282307 AAATTAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAAAATTAAATTTAATTAAA
Found at i:1282290 original size:22 final size:23
Alignment explanation
Indices: 1282256--1282306 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
1282246 AAATAAAAAT
*
1282256 ATTAAATTTAAAAAATAAATTTA
1 ATTAAATTAAAAAAATAAATTTA
*
1282279 ATTAAA-TAAAAAATTAAATTTA
1 ATTAAATTAAAAAAATAAATTTA
*
1282301 TTTAAA
1 ATTAAA
1282307 AAATTAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTAAATTAAAAAAATAAATTTA
Found at i:1282356 original size:21 final size:21
Alignment explanation
Indices: 1282330--1282372 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1282320 ATTTAATTTT
1282330 TTAATTATATATTAATATATA
1 TTAATTATATATTAATATATA
* **
1282351 TTAATTTTATATTTTTATATA
1 TTAATTATATATTAATATATA
1282372 T
1 T
1282373 GATGTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTATATATTAATATATA
Found at i:1282370 original size:23 final size:25
Alignment explanation
Indices: 1282334--1282382 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
1282324 AATTTTTTAA
1282334 TTATATATTAATATAT-AT-TAATT
1 TTATATATTAATATATGATGTAATT
* *
1282357 TTATATTTTTATATATGATGTAATT
1 TTATATATTAATATATGATGTAATT
1282382 T
1 T
1282383 ATGCATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 2 0.09
25 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATATATTAATATATGATGTAATT
Found at i:1282460 original size:13 final size:13
Alignment explanation
Indices: 1282442--1282466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1282432 TTTAAAATTT
1282442 ATTAAAAAATTAA
1 ATTAAAAAATTAA
1282455 ATTAAAAAATTA
1 ATTAAAAAATTA
1282467 TACTATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAAAATTAA
Found at i:1282958 original size:16 final size:16
Alignment explanation
Indices: 1282937--1282993 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
1282927 TGTGCAGCTC
1282937 AAATAATTTAAATTTA
1 AAATAATTTAAATTTA
*
1282953 AAATAATTAAAATTTA
1 AAATAATTTAAATTTA
* *
1282969 ATATAATTTAATTTTA
1 AAATAATTTAAATTTA
1282985 AAATAATTT
1 AAATAATTT
1282994 GAAAATGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:1284143 original size:26 final size:24
Alignment explanation
Indices: 1284100--1284172 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 24
1284090 ATTTTAATTC
*
1284100 TTAAGTAA-AATTTTTAAT-TTAAT
1 TTAA-TAATAATTTTTAATATTAAA
1284123 TTATATAATATATTTTGTAATATTAAA
1 TTA-ATAATA-ATTTT-TAATATTAAA
*
1284150 TTAATAATAATTTATTATTATTA
1 TTAATAATAATTT-TTAATATTA
1284173 TTATATTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
23 6 0.14
24 2 0.05
25 16 0.38
26 11 0.26
27 7 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
TTAATAATAATTTTTAATATTAAA
Found at i:1284175 original size:28 final size:27
Alignment explanation
Indices: 1284140--1284217 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
1284130 ATATATTTTG
1284140 TAATATTAAATTAATAATAATTTATTA
1 TAATATTAAATTAATAATAATTTATTA
* * *
1284167 TTATTATTATATT-ATAATTAATTAATTA
1 -TAATATTAAATTAATAA-TAATTTATTA
1284195 TAAT-TTAAATTACATAA-AATTTA
1 TAATATTAAATTA-ATAATAATTTA
1284218 ATAAAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 11 0.27
27 7 0.17
28 23 0.56
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
TAATATTAAATTAATAATAATTTATTA
Found at i:1284179 original size:14 final size:15
Alignment explanation
Indices: 1284153--1284199 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
1284143 TATTAAATTA
1284153 ATAA-TAATT-TATT
1 ATAATTAATTATATT
*
1284166 ATTATT-ATTATATT
1 ATAATTAATTATATT
1284180 ATAATTAATTA-ATT
1 ATAATTAATTATATT
1284194 ATAATT
1 ATAATT
1284200 TAAATTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 19 0.66
15 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTAATTATATT
Found at i:1287589 original size:11 final size:10
Alignment explanation
Indices: 1287572--1287620 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
1287562 AGCTTCCAAG
1287572 AGAAAAAAAA
1 AGAAAAAAAA
1287582 AGGAAAAAAAAA
1 A-G-AAAAAAAA
1287594 AGAAAAAAAA
1 AGAAAAAAAA
* *
1287604 TGAAAAAGAA
1 AGAAAAAAAA
1287614 AGAAAAA
1 AGAAAAA
1287621 TTAAGCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 23 0.68
11 2 0.06
12 9 0.26
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:1287609 original size:16 final size:17
Alignment explanation
Indices: 1287573--1287621 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
1287563 GCTTCCAAGA
*
1287573 GAAAAAAAAAGGAAAAA-
1 GAAAAAGAAA-GAAAAAT
1287590 -AAAAAGAAA-AAAAAT
1 GAAAAAGAAAGAAAAAT
1287605 GAAAAAGAAAGAAAAAT
1 GAAAAAGAAAGAAAAAT
1287622 TAAGCTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.18
16 17 0.61
17 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (17 bp):
GAAAAAGAAAGAAAAAT
Found at i:1288433 original size:4 final size:4
Alignment explanation
Indices: 1288424--1288473 Score: 66
Period size: 4 Copynumber: 12.2 Consensus size: 4
1288414 CAATTTTCAA
*
1288424 AAAT AAAT -AAT GATAAT AAAT AAAT AAAT TAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT -A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1288473 A
1 A
1288474 CCAAATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 3 0.07
4 34 0.83
5 1 0.02
6 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:1289051 original size:156 final size:156
Alignment explanation
Indices: 1288767--1289208 Score: 406
Period size: 156 Copynumber: 2.9 Consensus size: 156
1288757 TTTTAGGGGT
* * ** * *
1288767 ATTTTCATAATTTTTTTAGAACCGAGTCCTAGGTTGTTATCGGGTCTGCTTTTATGCCGAATGTG
1 ATTTTCATAATTTTTCTAGAACCGAGTCCTAGGTTGTCATCGGGTCCACTTTTATACCGAAAGTG
* * *
1288832 GGTATTTAGAATAGGTTCATTCCATCTATAATCCTTTTTAAGTCCTTTAGGGGTATTGGGCACTT
66 GGTATTTAGAATAGGTTCATTCCATCTATAATCATTTTTAAGTCCTTTAGAGGTATTGAGCACTT
* * *
1288897 CTAAGTTGAAGGTATCTCTTAAGGAC
131 CTAAGTCGAAAGTATCCCTTAAGGAC
* * *
1288923 ATTTTCATAATTTTTCTAGAATCGAGTCTTAGGTTGTCATCGGGTCCACTTTTATATC-AAAGAT
1 ATTTTCATAATTTTTCTAGAACCGAGTCCTAGGTTGTCATCGGGTCCACTTTTATACCGAAAG-T
* *
1288987 GGGTATTTA-AGATAGGTTCA-TCCTATCTATAATCATTTTTAAGTCTTTTCGAGGTATCT-AGC
65 GGGTATTTAGA-ATAGGTTCATTCC-ATCTATAATCATTTTTAAGTCCTTTAGAGGTAT-TGAGC
1289049 ACTTCTAAGTCGAAAGTATCCCTTAAGG--
127 ACTTCTAAGTCGAAAGTATCCCTTAAGGAC
* * * * * * * * * ** ** *
1289077 --GTT--T--TTTTTC-ATAATCGAGTCTTAAGTTATTACCGAGTCCGTTTTTAGGCCGAAGGTG
1 ATTTTCATAATTTTTCTAGAACCGAGTCCTAGGTTGTCATCGGGTCCACTTTTATACCGAAAGTG
* * * * ** * *
1289135 AGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTTTTTTAGGGGTATCGAGCACTT
66 GGTATTTAGAATAGGTTCATTCCATCTATAATCATTTTTAAGTCCTTTAGAGGTATTGAGCACTT
1289200 CTAAGTCGA
131 CTAAGTCGA
1289209 TAGCAACAAA
Statistics
Matches: 240, Mismatches: 38, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
147 93 0.39
148 11 0.05
150 1 0.00
152 2 0.01
155 7 0.03
156 125 0.52
157 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (156 bp):
ATTTTCATAATTTTTCTAGAACCGAGTCCTAGGTTGTCATCGGGTCCACTTTTATACCGAAAGTG
GGTATTTAGAATAGGTTCATTCCATCTATAATCATTTTTAAGTCCTTTAGAGGTATTGAGCACTT
CTAAGTCGAAAGTATCCCTTAAGGAC
Found at i:1289200 original size:147 final size:151
Alignment explanation
Indices: 1288815--1289208 Score: 436
Period size: 147 Copynumber: 2.6 Consensus size: 151
1288805 ATCGGGTCTG
* * * *
1288815 CTTTTATGCCGAATGTGGGTATTTAGAATAGGTTCATTCCATCTATAATCCTTTTTAAGTCCTTT
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCTTTT
* * * * * *
1288880 AGGGGTATTGGGCACTTCTAAGTTGAAGGTATCTCTTAAGGACATTTTCATAATTTTTCTAGAAT
66 AGGGGTATCGAGCACTTCTAAGTCGAAAGTATCCCTTAAGG--A-GTT-AT-ATTTTTCTAGAAT
* * * *
1288945 CGAGTCTTAGGTTGTCATCGGGTCCA
126 CGAGTCTTAAGTTATCACCGAGTCCA
** * * * * *
1288971 CTTTTATATCAAAGATGGGTATTTAAGATAGGTTCATCCTATCTATAATCATTTTTAAGTCTTTT
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCTTTT
* * * *
1289036 CGAGGTATCTAGCACTTCTAAGTCGAAAGTATCCCTTAAGG-GTT-T-TTTTTC-ATAATCGAGT
66 AGGGGTATCGAGCACTTCTAAGTCGAAAGTATCCCTTAAGGAGTTATATTTTTCTAGAATCGAGT
* *
1289097 CTTAAGTTATTACCGAGTCCG
131 CTTAAGTTATCACCGAGTCCA
* * * *
1289118 TTTTTAGGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTTTTTT
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCTTTT
1289183 AGGGGTATCGAGCACTTCTAAGTCGA
66 AGGGGTATCGAGCACTTCTAAGTCGA
1289209 TAGCAACAAA
Statistics
Matches: 197, Mismatches: 41, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
147 101 0.51
148 6 0.03
150 1 0.01
152 2 0.01
156 87 0.44
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (151 bp):
CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCTTTT
AGGGGTATCGAGCACTTCTAAGTCGAAAGTATCCCTTAAGGAGTTATATTTTTCTAGAATCGAGT
CTTAAGTTATCACCGAGTCCA
Found at i:1290976 original size:15 final size:15
Alignment explanation
Indices: 1290956--1290989 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1290946 TTTATTGCCA
1290956 TTTAAATTTATGCAC
1 TTTAAATTTATGCAC
*
1290971 TTTAAATTTATGCCC
1 TTTAAATTTATGCAC
1290986 TTTA
1 TTTA
1290990 TTTTATTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTAAATTTATGCAC
Found at i:1291598 original size:41 final size:41
Alignment explanation
Indices: 1291546--1291670 Score: 125
Period size: 40 Copynumber: 3.1 Consensus size: 41
1291536 AACATATCAA
1291546 TTAAGGT-AATTTTAGTAATTTTCACATTAAAATCAAGT-TT
1 TTAAGGTCAATTTTAGTAATTTTCACATTAAAA-CAAGTCTT
* * * * *
1291586 TTAGGGTCAATTTTAG-CATTTTCATATCAAAACATA-TCTA
1 TTAAGGTCAATTTTAGTAATTTTCACATTAAAACA-AGTCTT
* *
1291626 TTAAGGTC-ATTTTAATAATTTTTACATTAAAACCAAGTCTT
1 TTAAGGTCAATTTTAGTAATTTTCACATTAAAA-CAAGTCTT
1291667 TTAA
1 TTAA
1291671 CATCATATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
39 9 0.13
40 41 0.61
41 17 0.25
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (41 bp):
TTAAGGTCAATTTTAGTAATTTTCACATTAAAACAAGTCTT
Found at i:1291634 original size:40 final size:41
Alignment explanation
Indices: 1291519--1291647 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 41
1291509 TAGGTCATGC
* *
1291519 TAGT-ATTATCATATCAAAACATATCAATTAAGGT-AATTT
1 TAGTAATTTTCATATCAAAACATATCTATTAAGGTCAATTT
* * * *
1291558 TAGTAATTTTCACATTAAAATCA-AGT-TTTTAGGGTCAATTT
1 TAGTAATTTTCATATCAAAA-CATA-TCTATTAAGGTCAATTT
*
1291599 TAG-CATTTTCATATCAAAACATATCTATTAAGGTC-ATTT
1 TAGTAATTTTCATATCAAAACATATCTATTAAGGTCAATTT
*
1291638 TAATAATTTT
1 TAGTAATTTT
1291648 TACATTAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
39 13 0.19
40 46 0.66
41 11 0.16
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (41 bp):
TAGTAATTTTCATATCAAAACATATCTATTAAGGTCAATTT
Found at i:1291682 original size:80 final size:80
Alignment explanation
Indices: 1291527--1291689 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 80
1291517 GCTAGTATTA
* * ***
1291527 TCATATCAAAACATATCAATTAAGGTAATTTTAGTAATTTTCACATTAAAATCAAGTTTTTAGGG
1 TCATATCAAAACATATCAATTAAGGTAATTTTAATAATTTTCACATTAAAACCAAGTTTTTAACA
* *
1291592 TCAATTTTAGCATTT
66 TCAATATTAGCACTT
* * *
1291607 TCATATCAAAACATATCTATTAAGGTCATTTTAATAATTTTTACATTAAAACCAAGTCTTTTAAC
1 TCATATCAAAACATATCAATTAAGGTAATTTTAATAATTTTCACATTAAAACCAAGT-TTTTAAC
1291672 ATC-ATATTAGCACTT
65 ATCAATATTAGCACTT
1291687 TCA
1 TCA
1291690 CGACAAAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 65 0.90
81 7 0.10
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (80 bp):
TCATATCAAAACATATCAATTAAGGTAATTTTAATAATTTTCACATTAAAACCAAGTTTTTAACA
TCAATATTAGCACTT
Found at i:1291697 original size:80 final size:80
Alignment explanation
Indices: 1291531--1291719 Score: 211
Period size: 80 Copynumber: 2.4 Consensus size: 80
1291521 GTATTATCAT
* * * * ***
1291531 ATCAAAACATATCAATTAAGGTAATTTTAGTAATTTTCACATTAAAATCAAGTTTTTAGGGTCAA
1 ATCAAAACATATCTATTAAGGTCATTTTAATAATTTTCACATTAAAACCAAGTTTTTAACATCAA
* * *
1291596 TTTTAGCATTTTCAT
66 TATTAGCACTTTCAG
*
1291611 ATCAAAACATATCTATTAAGGTCATTTTAATAATTTTTACATTAAAACCAAGTCTTTTAACATC-
1 ATCAAAACATATCTATTAAGGTCATTTTAATAATTTTCACATTAAAACCAAGT-TTTTAACATCA
1291675 ATATTAGCACTTTCACG
65 ATATTAGCACTTTCA-G
* * * *
1291692 A-CAAAATATGTCTAATGAGGTCATTTTA
1 ATCAAAACATATCTATTAAGGTCATTTTA
1291720 GTATTGTTCC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
80 84 0.91
81 8 0.09
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (80 bp):
ATCAAAACATATCTATTAAGGTCATTTTAATAATTTTCACATTAAAACCAAGTTTTTAACATCAA
TATTAGCACTTTCAG
Found at i:1297549 original size:21 final size:20
Alignment explanation
Indices: 1297520--1297558 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1297510 CATGTTTTTG
1297520 TTTAAATGTATCGATACATT
1 TTTAAATGTATCGATACATT
1297540 TTTAGAATGTATCGATACA
1 TTTA-AATGTATCGATACA
1297559 AGATCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (20 bp):
TTTAAATGTATCGATACATT
Found at i:1299281 original size:19 final size:19
Alignment explanation
Indices: 1299238--1299292 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1299228 TACCATTTTT
**
1299238 ATGTATCGATACAATTGTGC
1 ATGTATCGATACAA-TGAAC
1299258 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
1299277 ATGTATCGATACAATG
1 ATGTATCGATACAATG
1299293 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:1299295 original size:13 final size:13
Alignment explanation
Indices: 1299277--1299303 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1299267 TACAATGAAC
1299277 ATGTATCGATACA
1 ATGTATCGATACA
1299290 ATGTATCGATACA
1 ATGTATCGATACA
1299303 A
1 A
1299304 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1305965 original size:13 final size:13
Alignment explanation
Indices: 1305943--1305975 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1305933 GACAATTTTC
*
1305943 TTCATAATTTATT
1 TTCATCATTTATT
1305956 TTCATCATTTATT
1 TTCATCATTTATT
1305969 TTCATCA
1 TTCATCA
1305976 AGGATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (13 bp):
TTCATCATTTATT
Found at i:1308048 original size:13 final size:13
Alignment explanation
Indices: 1308030--1308054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1308020 ATAATTGTTA
1308030 TGTATCGATACAT
1 TGTATCGATACAT
1308043 TGTATCGATACA
1 TGTATCGATACA
1308055 ATGTGCCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1308148 original size:19 final size:19
Alignment explanation
Indices: 1308104--1308159 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1308094 CTGCCAGTTT
**
1308104 CATGTATCGATATAATTGTG
1 CATGTATCGATATAA-TGAA
*
1308124 CATGTATCGATACAATGAA
1 CATGTATCGATATAATGAA
1308143 CATGTATCGATATAATG
1 CATGTATCGATATAATG
1308160 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATATAATGAA
Found at i:1308166 original size:32 final size:33
Alignment explanation
Indices: 1308125--1308187 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
1308115 ATAATTGTGC
*
1308125 ATGTATCGATACAATG-A-ACATGTATCGATATA
1 ATGTATCGATACAAAGCATA-ATGTATCGATATA
1308157 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
1308188 CATCTAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATATA
Found at i:1310457 original size:17 final size:18
Alignment explanation
Indices: 1310435--1310468 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1310425 AATATTACAA
1310435 AAAAAT-AAAAAATAAAG
1 AAAAATAAAAAAATAAAG
1310452 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
1310469 CAACAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAG
Found at i:1312013 original size:28 final size:28
Alignment explanation
Indices: 1311979--1312168 Score: 166
Period size: 28 Copynumber: 6.8 Consensus size: 28
1311969 ACACAACTTT
*
1311979 GTGGCACCCTTTCAAAGCCCATGAGTCA
1 GTGGCACCCTTTCAAAGCCCACGAGTCA
* ** * * * *
1312007 GTCGCACGTTTTCAAAACGCATGAGTTA
1 GTGGCACCCTTTCAAAGCCCACGAGTCA
1312035 GTGGCACCCTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACGAGTCA
* * ** **
1312063 ATGGCA-CCTTTAAAAGTTCATAAGTCA
1 GTGGCACCCTTTCAAAGCCCACGAGTCA
* * *
1312090 GTGGCACCTTTTGATAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACGAGTCA
**
1312118 GTGGCACATTTTCAAAGCCCACGAGTCA
1 GTGGCACCCTTTCAAAGCCCACGAGTCA
* **
1312146 ATGATACCCTTTCAAAAGCCCAC
1 GTGGCACCCTTTC-AAAGCCCAC
1312169 ACAAGTCGGT
Statistics
Matches: 125, Mismatches: 35, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
27 21 0.17
28 95 0.76
29 9 0.07
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACGAGTCA
Found at i:1312259 original size:43 final size:43
Alignment explanation
Indices: 1312211--1312468 Score: 131
Period size: 43 Copynumber: 5.6 Consensus size: 43
1312201 GTCGTTGGCT
* * *
1312211 TTGAATTAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCC
1 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
* * * * * *
1312254 TTGAATCAGCATATTGACACCTTTACCATCTTCAAGCCCAACATTGCTATCC
1 TTGAATCAGCACATTG---GC---ACC-T-TT-AAGTCCAATATCGCTAGCC
* ** * * * *
1312306 TTGAATTAGCACATTACCACCTTTATGTCTAATATCACTGGCC
1 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
* * * * *
1312349 TTGAATTAGCATATTGGCGCCTTTGTCATCTTTAAAG-CCAATGTCGCTAGCT
1 TTGAATCAGCACATT---G-----G-CACCTTT-AAGTCCAATATCGCTAGCC
1312401 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
1 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
* *
1312444 TTGAATCAACATATTGGCACCTTTA
1 TTGAATCAGCACATTGGCACCTTTA
1312469 CCACCTTTAA
Statistics
Matches: 160, Mismatches: 35, Indels: 40
0.68 0.15 0.17
Matches are distributed among these distances:
42 3 0.02
43 81 0.51
44 3 0.02
45 1 0.01
46 4 0.03
49 6 0.04
50 1 0.01
51 2 0.01
52 57 0.36
53 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (43 bp):
TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
Found at i:1312360 original size:95 final size:95
Alignment explanation
Indices: 1312211--1312519 Score: 345
Period size: 95 Copynumber: 3.3 Consensus size: 95
1312201 GTCGTTGGCT
* *
1312211 TTGAATTAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGACACCT
1 TTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * *
1312276 TTACCATC-TTCAAGCCCAACATTGCTATCC
66 TTACCATCTTTAAAG-CCAACATCGCTAGCC
** * * * * *
1312306 TTGAATTAGCACATTACCACCTTTATGTCTAATATCACTGGCCTTGAATTAGCATATTGGCGCCT
1 TTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
** ** *
1312371 TTGTCATCTTTAAAGCCAATGTCGCTAGCT
66 TTACCATCTTTAAAGCCAACATCGCTAGCC
* * *
1312401 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCT
1 TTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* ** * *
1312466 TTACCACCTTT-AAGTCCAATGTCGTTGGCC
66 TTACCATCTTTAAAG-CCAACATCGCTAGCC
*
1312496 TTGAATCAGCACATTGGCA-CTTTA
1 TTGAATTAGCACATTGGCACCTTTA
1312520 CCAACTTTAA
Statistics
Matches: 179, Mismatches: 33, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
94 8 0.04
95 166 0.93
96 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (95 bp):
TTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
TTACCATCTTTAAAGCCAACATCGCTAGCC
Found at i:1312497 original size:52 final size:51
Alignment explanation
Indices: 1312418--1312532 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 51
1312408 AGCACATTGG
*
1312418 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTTAC
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAACACATTGGCA-CTTTAC
* * * *
1312470 CACCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTAC
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAACACATTGGCACTTTAC
*
1312521 CAACTTTAAGTC
1 CACCTTTAAGTC
1312533 TAAAATCAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 17 0.30
52 40 0.70
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (51 bp):
CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAACACATTGGCACTTTAC
Found at i:1312654 original size:61 final size:61
Alignment explanation
Indices: 1312555--1312683 Score: 195
Period size: 61 Copynumber: 2.1 Consensus size: 61
1312545 ATTGGCACCT
** *
1312555 TCATCTTTAAGCCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTTAAGCCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTATCACTCTTC
* * * *
1312616 TCATCTTTAAGCCCAATATCGTTGGCCCTGAATTAGCATATTGGCATCTTTATCACTCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTATCACTCTTC
1312677 TCATCTT
1 TCATCTT
1312684 CATCATCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (61 bp):
TCATCTTTAAGCCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTTATCACTCTTC
Found at i:1312683 original size:18 final size:17
Alignment explanation
Indices: 1312660--1312693 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1312650 AGCATATTGG
*
1312660 CATCTTTATCACTCTTTT
1 CATCTTCATCA-TCTTTT
1312678 CATCTTCATCATCTTT
1 CATCTTCATCATCTTT
1312694 AAGTCTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (17 bp):
CATCTTCATCATCTTTT
Found at i:1313421 original size:33 final size:33
Alignment explanation
Indices: 1313384--1313446 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1313374 AAGGAAATGT
*
1313384 ATCGATACATTAATAAATGTATTGATACATTGC
1 ATCGATACATTAATAAATGTATCGATACATTGC
* * *
1313417 ATCGATACATTTATCATTGTATCGATACAT
1 ATCGATACATTAATAAATGTATCGATACAT
1313447 CTGGATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (33 bp):
ATCGATACATTAATAAATGTATCGATACATTGC
Found at i:1313479 original size:50 final size:51
Alignment explanation
Indices: 1313417--1313547 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
1313407 GATACATTGC
*
1313417 ATCGATACATTTATCATTGTATCGATACATCTGGAT-TTTTGGCC-AAATGT
1 ATCGATACATTTATCATTGTATCGATACATCTGGATATTTT-ACCTAAATGT
* * * *
1313467 ATCGATACATTTATCATTGCATCGATATATCTGGGTATTTTACCTAGATGT
1 ATCGATACATTTATCATTGTATCGATACATCTGGATATTTTACCTAAATGT
* *
1313518 ATCGATACA-TTATTCAATATATCGATACAT
1 ATCGATACATTTA-TCATTGTATCGATACAT
1313548 GAAGGCAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 38 0.55
51 31 0.45
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (51 bp):
ATCGATACATTTATCATTGTATCGATACATCTGGATATTTTACCTAAATGT
Found at i:1319041 original size:13 final size:13
Alignment explanation
Indices: 1319023--1319047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1319013 ACATATAGTA
1319023 TGTATCGATACAT
1 TGTATCGATACAT
1319036 TGTATCGATACA
1 TGTATCGATACA
1319048 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1319064 original size:33 final size:32
Alignment explanation
Indices: 1319003--1319070 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1318993 GTAGCTAAAC
* **
1319003 TTGTATCGATACATATAGTATGTATCGATACA
1 TTGTATCGATACACATAAAATGTATCGATACA
1319035 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACA-CATAAAATGTATCGATACA
1319068 TTG
1 TTG
1319071 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACATAAAATGTATCGATACA
Found at i:1325255 original size:13 final size:13
Alignment explanation
Indices: 1325237--1325275 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1325227 ACAGCATTCT
1325237 TTGTATCGATACA
1 TTGTATCGATACA
1325250 TTGTATCGATACA
1 TTGTATCGATACA
*
1325263 CTGTATCGATACA
1 TTGTATCGATACA
1325276 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1327848 original size:32 final size:33
Alignment explanation
Indices: 1327812--1327879 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1327802 GTAGCTAAAC
**
1327812 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1327844 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1327877 TTG
1 TTG
1327880 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1327850 original size:13 final size:13
Alignment explanation
Indices: 1327832--1327856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1327822 ACACATAGTA
1327832 TGTATCGATACAT
1 TGTATCGATACAT
1327845 TGTATCGATACA
1 TGTATCGATACA
1327857 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1330132 original size:27 final size:26
Alignment explanation
Indices: 1330085--1330137 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
1330075 GAATGAACAT
1330085 TGAATTGATAAAAAATTTATATATTTA
1 TGAATTGATAAAAAATTTATAT-TTTA
* *
1330112 TGAATTGCT-AAAACTTATATATTTTA
1 TGAATTGATAAAAAATT-TATATTTTA
1330138 AGAGATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (26 bp):
TGAATTGATAAAAAATTTATATTTTA
Found at i:1330223 original size:6 final size:6
Alignment explanation
Indices: 1330213--1330263 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
1330203 TAAATATGAA
* * *
1330213 ATATGT GTATGT ATATGT GTATGT ATATGT GTATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1330261 ATA
1 ATA
1330264 GGAAATTGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:1330230 original size:12 final size:12
Alignment explanation
Indices: 1330213--1330263 Score: 93
Period size: 12 Copynumber: 4.2 Consensus size: 12
1330203 TAAATATGAA
1330213 ATATGTGTATGT
1 ATATGTGTATGT
1330225 ATATGTGTATGT
1 ATATGTGTATGT
1330237 ATATGTGTATGT
1 ATATGTGTATGT
*
1330249 ATATGTATATGT
1 ATATGTGTATGT
1330261 ATA
1 ATA
1330264 GGAAATTGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (12 bp):
ATATGTGTATGT
Found at i:1330729 original size:23 final size:21
Alignment explanation
Indices: 1330698--1330740 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1330688 TTATTTTAGT
1330698 TTTAATTTTAGAAATGATTTTG
1 TTTAATTTTA-AAATGATTTTG
*
1330720 TTTAATTTTTAAAATGTTTTT
1 TTTAA-TTTTAAAATGATTTT
1330741 TAATGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTAATTTTAAAATGATTTTG
Found at i:1332101 original size:48 final size:48
Alignment explanation
Indices: 1332007--1332107 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
1331997 TTAATATTTT
* *
1332007 TGAAA-ATTAAATTATCTTTCATACCTCACCAAAGAGTTGAAAAAACA
1 TGAAAGATTAAATTATCTTCCATACCTCACCAAAGAGTCGAAAAAACA
* * *
1332054 TGAAAGATTAAGA-TATCTTCCATACCTCACTAGAG-GATCGAAGAAACA
1 TGAAAGATTAA-ATTATCTTCCATACCTCACCAAAGAG-TCGAAAAAACA
1332102 TGAAAG
1 TGAAAG
1332108 GTTTATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 6 0.13
48 39 0.85
49 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (48 bp):
TGAAAGATTAAATTATCTTCCATACCTCACCAAAGAGTCGAAAAAACA
Found at i:1332854 original size:155 final size:155
Alignment explanation
Indices: 1332625--1333000 Score: 402
Period size: 157 Copynumber: 2.4 Consensus size: 155
1332615 TACTCATATA
* * ** * * *
1332625 GAACTTGGTTTTAATGCAAAATTACCAAAATACCCTTAGAGTATATTTTCGACATGAAAGTATCT
1 GAACTTGGTTTTAAAG--AAATTACCAAAATACCTTTAGAGTATACCTTCGTCTTGAAAGCATCT
* * * * * *
1332690 TAATAACCCTAAAAGAC-TGAAAATGATCATAAAAAGGTGAA-TATATCCTAAATGTACAC-CTT
64 CAATAACCCTAAAAAACTTAAAAATAATCATAAAAAGAT-AACT-TATCCTAAATGCACACTCTT
1332752 TGGCATAAAAGCATCTTGATGACTACATT
127 TGGCATAAAAGCATCTTGATGACTACATT
*
1332781 GAACTTGGTTTTACAAGAAATTACCAAAATATCTTTAGAG-ATAACCTTCGTCTTGAAAGCATCT
1 GAACTTGGTTTTA-AAGAAATTACCAAAATACCTTTAGAGTAT-ACCTTCGTCTTGAAAGCATCT
* *
1332845 CAATGACCCTAAAAAACTTAAAAATAATCATAAAAAGATAACCTTATCCTAAATGCACACTTTTT
64 CAATAACCCTAAAAAACTTAAAAATAATCATAAAAAGATAA-CTTATCCTAAATGCACACTCTTT
* * *
1332910 GGCATTAAAGCATCTTGGTGACTATATT
128 GGCATAAAAGCATCTTGATGACTACATT
* * ** * * *
1332938 GGACTTGATTTTAGTGGATATTACCAAAATACCTTTAG-GTACTACCTTCATCTTAAAAGCATC
1 GAACTTGGTTTTA-AAGAAATTACCAAAATACCTTTAGAGTA-TACCTTCGTCTTGAAAGCATC
1333001 CTTATGATCT
Statistics
Matches: 184, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
154 2 0.01
155 53 0.29
156 47 0.26
157 81 0.44
158 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (155 bp):
GAACTTGGTTTTAAAGAAATTACCAAAATACCTTTAGAGTATACCTTCGTCTTGAAAGCATCTCA
ATAACCCTAAAAAACTTAAAAATAATCATAAAAAGATAACTTATCCTAAATGCACACTCTTTGGC
ATAAAAGCATCTTGATGACTACATT
Found at i:1334512 original size:12 final size:12
Alignment explanation
Indices: 1334490--1334515 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1334480 TCAAAAATCA
1334490 AAAATTAAAATT
1 AAAATTAAAATT
1334502 AAAATTAAAATT
1 AAAATTAAAATT
1334514 AA
1 AA
1334516 TATTCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:1336969 original size:29 final size:29
Alignment explanation
Indices: 1336939--1337090 Score: 78
Period size: 29 Copynumber: 5.2 Consensus size: 29
1336929 CCTTAATATG
*
1336939 CATGAAATAACCTAAAAGATCCTAAAATG
1 CATGAAATAACCTAAAAGATCCTAAAATA
* * * * *
1336968 CATGATAAT-GCC-AAAGTGACCCTAGATTA
1 CATGA-AATAACCTAAA-AGATCCTAAAATA
* * * * *
1336997 TATAAAATAACTTAAATGATCTTAAAATA
1 CATGAAATAACCTAAAAGATCCTAAAATA
* * * *
1337026 CACGAAAATTA-C-AAAATGTTCCTAATATA
1 CATG-AAATAACCTAAAA-GATCCTAAAATA
* * *
1337055 CATGAAATAACCTAAAGGACCCTAAAATG
1 CATGAAATAACCTAAAAGATCCTAAAATA
1337084 CATGAAA
1 CATGAAA
1337091 AATGCTAAGT
Statistics
Matches: 85, Mismatches: 30, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
28 14 0.16
29 57 0.67
30 14 0.16
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (29 bp):
CATGAAATAACCTAAAAGATCCTAAAATA
Found at i:1337079 original size:116 final size:116
Alignment explanation
Indices: 1336902--1337246 Score: 336
Period size: 116 Copynumber: 3.0 Consensus size: 116
1336892 TATGTGGCCC
* * * * * * *
1336902 TAAAATATAAGAAACTTGCTAAATGGTCCTTAATATGCATGAAATAACCTAAAAGATCCTAAAAT
1 TAAAATACAAGAAAATTACAAAATGTTCC-TAATATGCATGAAATAACCTAAAGGACCCTAAAAT
* *
1336967 GCATGATAATGCCAAAGTGACCCTAGATTATATAAAATAACTTAAAT-GATCT
65 GCATGAAAATGCCAAAGTGACCCTAGATTATATAAAATAACCTAAATGGA-CT
* *
1337019 TAAAATACACGAAAATTACAAAATGTTCCTAATATACATGAAATAACCTAAAGGACCCTAAAATG
1 TAAAATACAAGAAAATTACAAAATGTTCCTAATATGCATGAAATAACCTAAAGGACCCTAAAATG
* * *
1337084 CATGAAAAATG-CTAAGTTGA-CCTAGATTATGTGAAATAACCTAAATGGACT
66 CATG-AAAATGCCAAAG-TGACCCTAGATTATATAAAATAACCTAAATGGACT
** * * * * * ** * ** * *
1337135 TAAAATGTAAGGAAATTGCTAAACGATCCCTACCATGCATAAAATTGCTTAAAGGGCCCTAAAAT
1 TAAAATACAAGAAAATTACAAAATG-TTCCTAATATGCATGAAATAACCTAAAGGACCCTAAAAT
* * * *
1337200 GCATGAAAATGCTAAATTGACCCTACATTGTATAAAATAACCTAAAT
65 GCATGAAAATGCCAAAGTGACCCTAGATTATATAAAATAACCTAAAT
1337247 AACCATAAAG
Statistics
Matches: 185, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
116 93 0.50
117 92 0.50
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (116 bp):
TAAAATACAAGAAAATTACAAAATGTTCCTAATATGCATGAAATAACCTAAAGGACCCTAAAATG
CATGAAAATGCCAAAGTGACCCTAGATTATATAAAATAACCTAAATGGACT
Found at i:1337081 original size:58 final size:58
Alignment explanation
Indices: 1336899--1337091 Score: 145
Period size: 58 Copynumber: 3.3 Consensus size: 58
1336889 TTCTATGTGG
* * * * * * *
1336899 CCCTAAAATATAAGAAACTTGCTAAATGGTCCTTAATATGCATGAAATAACCTAAAAGA
1 CCCTAAAATACATGAAAATTACAAAATGATCC-TAATATACATGAAATAACCTAAAAGA
* * * ** * * * * * *
1336958 TCCTAAAATGCATGATAATGCCAAAGTGACCCTAGAT-TATATAAAATAACTTAAATGA
1 CCCTAAAATACATGAAAATTACAAAATGATCCTA-ATATACATGAAATAACCTAAAAGA
* * * * *
1337016 TCTTAAAATACACGAAAATTACAAAATGTTCCTAATATACATGAAATAACCTAAAGGA
1 CCCTAAAATACATGAAAATTACAAAATGATCCTAATATACATGAAATAACCTAAAAGA
*
1337074 CCCTAAAATGCATGAAAA
1 CCCTAAAATACATGAAAA
1337092 ATGCTAAGTT
Statistics
Matches: 98, Mismatches: 34, Indels: 5
0.72 0.25 0.04
Matches are distributed among these distances:
57 2 0.02
58 74 0.76
59 22 0.22
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (58 bp):
CCCTAAAATACATGAAAATTACAAAATGATCCTAATATACATGAAATAACCTAAAAGA
Found at i:1337235 original size:58 final size:58
Alignment explanation
Indices: 1336943--1337245 Score: 166
Period size: 58 Copynumber: 5.2 Consensus size: 58
1336933 AATATGCATG
* ** * * * * *
1336943 AAATAACCTAAAAGATCCTAAAATGCATGATAATGCCAAAGTGACCCTAGATTATATA
1 AAATAACCTAAAGGGCCCTAAAATGCATGAAAATGCTAAATTGACCCTACATTGTATA
* * ** * * * * * ** ** *
1337001 AAATAACTTAAATGATCTTAAAATACACGAAAATTAC-AAAATGTTCCTA-ATATACATG
1 AAATAACCTAAAGGGCCCTAAAATGCATGAAAA-TGCTAAATTGACCCTACAT-TGTATA
* * * * * *
1337059 AAATAACCTAAAGGACCCTAAAATGCATGAAAAATGCTAAGTTGA-CCTAGATTATGTG
1 AAATAACCTAAAGGGCCCTAAAATGCATG-AAAATGCTAAATTGACCCTACATTGTATA
* * * * * * * *
1337117 AAATAACCTAAATGGACTTAAAATGTAAGGAAATTGCTAAA-CGATCCCTACCA-TGCATA
1 AAATAACCTAAAGGGCCCTAAAATG-CATGAAAATGCTAAATTGA-CCCTA-CATTGTATA
** *
1337176 AAATTGCTTAAAGGGCCCTAAAATGCATGAAAATGCTAAATTGACCCTACATTGTATA
1 AAATAACCTAAAGGGCCCTAAAATGCATGAAAATGCTAAATTGACCCTACATTGTATA
1337234 AAATAACCTAAA
1 AAATAACCTAAA
1337246 TAACCATAAA
Statistics
Matches: 182, Mismatches: 52, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
57 6 0.03
58 134 0.74
59 41 0.23
60 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.25
Consensus pattern (58 bp):
AAATAACCTAAAGGGCCCTAAAATGCATGAAAATGCTAAATTGACCCTACATTGTATA
Found at i:1337290 original size:117 final size:116
Alignment explanation
Indices: 1336922--1337296 Score: 328
Period size: 117 Copynumber: 3.2 Consensus size: 116
1336912 GAAACTTGCT
* * * * * * * *
1336922 AAATGGTCCTTAATATGCATGAAATAACCTAAAAGATCCTAAAATGCATGATAATGCCAAAGTGA
1 AAATGATCCTCAATATGCATAAAATAACCTAAAGGACCCTAAAATGCATGAAAATGCTAAATTGA
* * * * *
1336987 CCCTAGATTATATAAAATAACTTAAATGATCTTAAAATACACGAAAAT-TACA
66 CCCTAGATTATATAAAATAACCTAAATGA-CTTAAAATGCAAGGAAATGCA-A
* * * *
1337039 AAATGTTCCT-AATATACATGAAATAACCTAAAGGACCCTAAAATGCATGAAAAATGCTAAGTTG
1 AAATGATCCTCAATATGCATAAAATAACCTAAAGGACCCTAAAATGCATG-AAAATGCTAAATTG
* * * *
1337103 A-CCTAGATTATGTGAAATAACCTAAATGGACTTAAAATGTAAGGAAATTGC-T
65 ACCCTAGATTATATAAAATAACCTAAAT-GACTTAAAATGCAAGGAAA-TGCAA
* ** ** * *
1337155 AAACGATCC-CTACCATGCATAAAATTGCTTAAAGGGCCCTAAAATGCATGAAAATGCTAAATTG
1 AAATGATCCTC-AATATGCATAAAATAACCTAAAGGACCCTAAAATGCATGAAAATGCTAAATTG
* * * * * *
1337219 ACCCTACATTGTATAAAATAACCTAAATAACCATAAAGTGCATGGAAATGCAA
65 ACCCTAGATTATATAAAATAACCTAAATGA-CTTAAAATGCAAGGAAATGCAA
*
1337272 AAATGATCCTCATTATGCATGAAAA
1 AAATGATCCTCAATATGCAT-AAAA
1337297 CATCTTGAAA
Statistics
Matches: 206, Mismatches: 41, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
116 97 0.47
117 104 0.50
118 5 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (116 bp):
AAATGATCCTCAATATGCATAAAATAACCTAAAGGACCCTAAAATGCATGAAAATGCTAAATTGA
CCCTAGATTATATAAAATAACCTAAATGACTTAAAATGCAAGGAAATGCAA
Found at i:1344050 original size:3 final size:3
Alignment explanation
Indices: 1343986--1344039 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
1343976 ATTGTTAAAT
*
1343986 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1344034 TCA TAA
1 TAA TAA
1344040 AAGTATAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1351405 original size:52 final size:52
Alignment explanation
Indices: 1351345--1351446 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
1351335 AGGTTTTACC
*
1351345 ATATTATAATT-GCCGTTGCATTTTAATTATTCTACTTCTATTAAGACTAAAT
1 ATATTATAATTAG-CGTTGAATTTTAATTATTCTACTTCTATTAAGACTAAAT
* *
1351397 ATATTATAATTAGTGTTGAATTTTAATTATTCTACTTCTATTATGACTAA
1 ATATTATAATTAGCGTTGAATTTTAATTATTCTACTTCTATTAAGACTAA
1351447 CTACTAGCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 45 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (52 bp):
ATATTATAATTAGCGTTGAATTTTAATTATTCTACTTCTATTAAGACTAAAT
Found at i:1356082 original size:2 final size:2
Alignment explanation
Indices: 1356075--1356109 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1356065 TTTAGTGTAT
1356075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1356110 CTTATCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1356212 original size:18 final size:18
Alignment explanation
Indices: 1356177--1356212 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1356167 GACGAAAAAA
*
1356177 ATTATGTTATATAATAAT
1 ATTATGTTATACAATAAT
*
1356195 ATTATGTTATACAGTAAT
1 ATTATGTTATACAATAAT
1356213 TTTGCAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATGTTATACAATAAT
Found at i:1358790 original size:20 final size:20
Alignment explanation
Indices: 1358765--1358815 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1358755 ATCGATACAA
*
1358765 TGTATCAATACTTAGCAATT
1 TGTATCGATACTTAGCAATT
1358785 TGTATCGATACTTAGCAATT
1 TGTATCGATACTTAGCAATT
1358805 TGTATCGATAC
1 TGTATCGATAC
1358816 ATCTGGGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
TGTATCGATACTTAGCAATT
Found at i:1361506 original size:21 final size:21
Alignment explanation
Indices: 1361477--1361519 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1361467 CAAATTCATG
* *
1361477 AACAGTTAACCACACAACATC
1 AACAATTAACAACACAACATC
*
1361498 AACAATTAACAACACAAGATC
1 AACAATTAACAACACAACATC
1361519 A
1 A
1361520 TTCAAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (21 bp):
AACAATTAACAACACAACATC
Found at i:1369440 original size:13 final size:13
Alignment explanation
Indices: 1369418--1369459 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
1369408 GATACTATTC
1369418 ACACTGTATCGAT
1 ACACTGTATCGAT
*
1369431 ACACTATATCGAT
1 ACACTGTATCGAT
*
1369444 ACAATGTATCGAT
1 ACACTGTATCGAT
1369457 ACA
1 ACA
1369460 TGAATAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (13 bp):
ACACTGTATCGAT
Found at i:1369478 original size:10 final size:10
Alignment explanation
Indices: 1369459--1369490 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1369449 GTATCGATAC
1369459 ATGAATAGTG
1 ATGAATAGTG
*
1369469 ATGAACAGTG
1 ATGAATAGTG
1369479 ATGAATAGTG
1 ATGAATAGTG
1369489 AT
1 AT
1369491 TTATCGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:1373732 original size:6 final size:6
Alignment explanation
Indices: 1373718--1373770 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
1373708 TTGTGTTTAT
*
1373718 ATATGC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1373766 ATATA
1 ATATA
1373771 TTCCTATCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:1374104 original size:15 final size:16
Alignment explanation
Indices: 1374082--1374121 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1374072 TAATAACTAG
*
1374082 AAATAAATAATTAAA-
1 AAATAAATAATCAAAC
*
1374097 AGATAAATAATCAAAC
1 AAATAAATAATCAAAC
1374113 AAATAAATA
1 AAATAAATA
1374122 GAGTAGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAAATAATCAAAC
Found at i:1376643 original size:84 final size:85
Alignment explanation
Indices: 1376525--1376680 Score: 233
Period size: 84 Copynumber: 1.8 Consensus size: 85
1376515 CGTAGGTGGA
* * * **
1376525 AAAAACTTGTTTGGCTTTAGTTTGGGAAACTAAAAAATTATATCA-TACATGAAAACCTTTTAAA
1 AAAAACTAGTTTGGCTTTAGTTTGCGAAACTAAAAAATTACATCATTACATGAAAACCCCTTAAA
1376589 ATGTTGGCACCCATGGGTAG
66 ATGTTGGCACCCATGGGTAG
* * *
1376609 AAAAACTAGTTTGGCTTTAGTTTGCGCAGCTAAAAAATTGCATCATTACATGAAAACCCCTTAAA
1 AAAAACTAGTTTGGCTTTAGTTTGCGAAACTAAAAAATTACATCATTACATGAAAACCCCTTAAA
1376674 ATGTTGG
66 ATGTTGG
1376681 TAATTTCTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 39 0.62
85 24 0.38
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (85 bp):
AAAAACTAGTTTGGCTTTAGTTTGCGAAACTAAAAAATTACATCATTACATGAAAACCCCTTAAA
ATGTTGGCACCCATGGGTAG
Found at i:1379361 original size:7 final size:7
Alignment explanation
Indices: 1379349--1379407 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
1379339 TTTTTTGATT
1379349 AGAAAAA
1 AGAAAAA
1379356 AGAAAAAAA
1 AG--AAAAA
1379365 AGAAAAA
1 AGAAAAA
*
1379372 ATTAAAAA
1 A-GAAAAA
1379380 AG-AAAA
1 AGAAAAA
* *
1379386 AGGAAGA
1 AGAAAAA
1379393 A-AAAAA
1 AGAAAAA
1379399 AGAAAAA
1 AGAAAAA
1379406 AG
1 AG
1379408 TGAGTGGCCT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
6 10 0.24
7 19 0.45
8 6 0.14
9 7 0.17
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AGAAAAA
Found at i:1379365 original size:9 final size:9
Alignment explanation
Indices: 1379351--1379406 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
1379341 TTTTGATTAG
1379351 AAAAAAGAA
1 AAAAAAGAA
1379360 AAAAAAG--
1 AAAAAAGAA
**
1379367 AAAAAA-TT
1 AAAAAAGAA
1379375 AAAAAAGAA
1 AAAAAAGAA
*
1379384 AAAGGAAGAA
1 AAA-AAAGAA
1379394 AAAAAAGAA
1 AAAAAAGAA
1379403 AAAA
1 AAAA
1379407 GTGAGTGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 19 0.49
10 8 0.21
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:1379378 original size:24 final size:25
Alignment explanation
Indices: 1379351--1379397 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1379341 TTTTGATTAG
1379351 AAAAAAGAAAAA-AAAGAAAAAATT
1 AAAAAAGAAAAAGAAAGAAAAAATT
*
1379375 AAAAAAGAAAAAGGAAGAAAAAA
1 AAAAAAGAAAAAGAAAGAAAAAA
1379398 AAGAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (25 bp):
AAAAAAGAAAAAGAAAGAAAAAATT
Found at i:1386249 original size:2 final size:2
Alignment explanation
Indices: 1386242--1386276 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1386232 CTTGAACAAT
1386242 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1386277 CTACCAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1403195 original size:29 final size:28
Alignment explanation
Indices: 1403145--1403204 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
1403135 TAATAATAAT
*
1403145 TTACTATTTATTTTTAATA-TTTTTATA
1 TTACTATTTATTTTTAAAATTTTTTATA
1403172 TTACTTATTTGATTTTTAAAATTTTTTATA
1 TTAC-TATTT-ATTTTTAAAATTTTTTATA
1403202 TTA
1 TTA
1403205 AATATTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.14
28 5 0.17
29 9 0.31
30 11 0.38
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TTACTATTTATTTTTAAAATTTTTTATA
Found at i:1403211 original size:30 final size:29
Alignment explanation
Indices: 1403149--1403212 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
1403139 AATAATTTAC
* **
1403149 TATTT-ATTTTTAATATTTTTATATTACT
1 TATTTGATTTTTAAAATTTTTATATTAAA
1403177 TATTTGATTTTTAAAATTTTTTATATTAAA
1 TATTTGATTTTTAAAA-TTTTTATATTAAA
1403207 TATTTG
1 TATTTG
1403213 TAATATTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.16
29 9 0.29
30 17 0.55
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTTGATTTTTAAAATTTTTATATTAAA
Found at i:1409395 original size:17 final size:17
Alignment explanation
Indices: 1409373--1409412 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
1409363 CTTCTAGAAG
1409373 AGGCATCTCTGGCTAAT
1 AGGCATCTCTGGCTAAT
1409390 AGGCATCTCTGGCTAAT
1 AGGCATCTCTGGCTAAT
1409407 AGGCAT
1 AGGCAT
1409413 TCTTTATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (17 bp):
AGGCATCTCTGGCTAAT
Found at i:1411092 original size:2 final size:2
Alignment explanation
Indices: 1411085--1411113 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1411075 ACCCAGTTAA
1411085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1411114 AAAGGGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1412254 original size:20 final size:20
Alignment explanation
Indices: 1412225--1412269 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1412215 AGTTACTTAT
*
1412225 TATTATTATTATTATT-ATAA
1 TATTAATATT-TTATTAATAA
*
1412245 TATTAATATTTTTTTAATAA
1 TATTAATATTTTATTAATAA
1412265 TATTA
1 TATTA
1412270 TTAAGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTAATATTTTATTAATAA
Found at i:1412280 original size:40 final size:40
Alignment explanation
Indices: 1412236--1412312 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
1412226 ATTATTATTA
1412236 TTATTATAATATTAATATTTTTTTAATAATATTATTAAGG
1 TTATTATAATATTAATATTTTTTTAATAATATTATTAAGG
* * * * *
1412276 TTATTATTATGTTCATATTTTTTTATTTATATTATTA
1 TTATTATAATATTAATATTTTTTTAATAATATTATTA
1412313 TGTTGGTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (40 bp):
TTATTATAATATTAATATTTTTTTAATAATATTATTAAGG
Found at i:1412411 original size:22 final size:25
Alignment explanation
Indices: 1412386--1412438 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1412376 AATAATAGTT
*
1412386 TTTATTATTAA-AA-A-TTATTTTA
1 TTTATTATTAATAACAGTAATTTTA
*
1412408 TTTACTATTAATAACAGTAATTTTA
1 TTTATTATTAATAACAGTAATTTTA
1412433 TTTATT
1 TTTATT
1412439 TATATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 10 0.40
23 2 0.08
24 1 0.04
25 12 0.48
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTATTATTAATAACAGTAATTTTA
Found at i:1412796 original size:13 final size:14
Alignment explanation
Indices: 1412778--1412810 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
1412768 ATGAGTATCA
1412778 TTTAAATTAAA-AT
1 TTTAAATTAAATAT
1412791 TTTAAATTAAATAT
1 TTTAAATTAAATAT
1412805 TTTAAA
1 TTTAAA
1412811 ATGATTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATTAAATAT
Found at i:1412981 original size:3 final size:3
Alignment explanation
Indices: 1412975--1413021 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
1412965 ATAATATCCT
* *
1412975 TAA TAA TAT TAT TAA -AA -AA TAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1413020 TA
1 TA
1413022 GACATCGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1413018 original size:39 final size:39
Alignment explanation
Indices: 1412935--1413021 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
1412925 AAATCCTAAC
* * *
1412935 ATAATAACATTATTAAAAAATATCAACATAATAATATCC
1 ATAATAATATTATTAAAAAATATCAAAATAATAATATCA
*
1412974 TTAATAATATTATTAAAAAATAAT-AAAATAATAATAAT-A
1 ATAATAATATTATTAAAAAAT-ATCAAAATAATAAT-ATCA
1413013 ATAATAATA
1 ATAATAATA
1413022 GACATCGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (39 bp):
ATAATAATATTATTAAAAAATATCAAAATAATAATATCA
Found at i:1413221 original size:11 final size:13
Alignment explanation
Indices: 1413169--1413223 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
1413159 AAAATAATAA
* *
1413169 TATTCTAATAACT
1 TATTTTAATAAAT
1413182 TATTTTAATTTAATAT
1 TATTTTAA--TAA-AT
1413198 TATTTTAATAAAT
1 TATTTTAATAAAT
1413211 TA-TTTAA-AAAT
1 TATTTTAATAAAT
1413222 TA
1 TA
1413224 ACTATACTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 6 0.16
12 5 0.14
13 11 0.30
14 3 0.08
15 3 0.08
16 9 0.24
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTTTAATAAAT
Found at i:1414707 original size:13 final size:13
Alignment explanation
Indices: 1414689--1414714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1414679 TACTTGACAA
1414689 CTTGAGGACTATG
1 CTTGAGGACTATG
1414702 CTTGAGGACTATG
1 CTTGAGGACTATG
1414715 TACTTAGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
CTTGAGGACTATG
Found at i:1415047 original size:2 final size:2
Alignment explanation
Indices: 1415035--1415067 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1415025 CATTTGAATC
*
1415035 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1415068 GACATACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1430225 original size:24 final size:23
Alignment explanation
Indices: 1430189--1430233 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1430179 TCAAAGAGGT
1430189 AAAGGAATTCATTATGAAGCAATG
1 AAAGGAATTCATT-TGAAGCAATG
*
1430213 AAAGG-ATTACATTTGTAGCAA
1 AAAGGAATT-CATTTGAAGCAA
1430234 AAGCAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (23 bp):
AAAGGAATTCATTTGAAGCAATG
Found at i:1437680 original size:79 final size:78
Alignment explanation
Indices: 1437585--1437755 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 78
1437575 GTCGGAGTAC
* *
1437585 CCCCTC-AGAAATAACGGAGTTGGAGTATCCCCAATAGT-GAAAAATCGATGTTTTGAAAATAAA
1 CCCCTCGA-AAATAACGGAGTCGGAGTATCCCCAATAGTAG-AAAATCGATGCTTTGAAAA-AAA
* *
1437648 ACTGGGGTTGGAGCAT
63 ACTAGGGTTGAAGCAT
* * * * * *
1437664 CTCCTCGAAAATAACGGGGTCGGAGTATCCCCGATTGTAGAAAATCGATGCTTTGGAAAAAAATT
1 CCCCTCGAAAATAACGGAGTCGGAGTATCCCCAATAGTAGAAAATCGATGCTTTGAAAAAAAACT
*
1437729 AGGGTTGAAGTAT
66 AGGGTTGAAGCAT
*
1437742 CCCCTCGGAAATAA
1 CCCCTCGAAAATAA
1437756 AAACATGAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 27 0.35
79 48 0.62
80 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (78 bp):
CCCCTCGAAAATAACGGAGTCGGAGTATCCCCAATAGTAGAAAATCGATGCTTTGAAAAAAAACT
AGGGTTGAAGCAT
Found at i:1440389 original size:34 final size:35
Alignment explanation
Indices: 1440343--1440473 Score: 142
Period size: 34 Copynumber: 3.7 Consensus size: 35
1440333 AAGGACATCT
*
1440343 TGCTTTTCGAGGACAAAGGAAAAGGAAG-AAGTCC
1 TGCTCTTCGAGGACAAAGGAAAAGGAAGAAAGTCC
* * * *
1440377 TGCTCTTCGAGGACAAAGGAAAATG-AGTATGCCC
1 TGCTCTTCGAGGACAAAGGAAAAGGAAGAAAGTCC
1440411 TGCTCTTCGAGGACAAAGGAAAAGAGAATGAAATAGGTCC
1 TGCTCTTCGAGGACAAAGGAAAAG-GAA-G-AA-A-GTCC
1440451 TGCTCCTT-GAGGACAAAGGAAAA
1 TGCT-CTTCGAGGACAAAGGAAAA
1440474 AAGGAAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.02
34 50 0.62
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
40 22 0.27
41 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.18
Consensus pattern (35 bp):
TGCTCTTCGAGGACAAAGGAAAAGGAAGAAAGTCC
Found at i:1440625 original size:61 final size:61
Alignment explanation
Indices: 1440525--1441328 Score: 759
Period size: 61 Copynumber: 13.1 Consensus size: 61
1440515 AAAGGAAATT
* * * * * ** *
1440525 AAAACGCGTCCTACTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGCAGGCTTTGCAATG
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * *
1440586 AGAAA-GCGTCCTACTTTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAAGCTTTAAAAAGG
1 A-AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAA-G
* * * *
1440648 AAAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * * * *
1440709 AAAAGGTGT-CTAGCTCTTTGAGGACTAGAAGTTTCCACCAACTTCTGT-GAGCTTT-GAAAG
1 AAAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAG-GCTTTAAAAAG
* * * * * *
1440769 GAAA-GTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTTTGGGCTTT-AAAAG
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * * *
1440828 AAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCATCAACTTGTGCAGGCTTTAAAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * *
1440889 AAAAGGCATCCTGCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTAGGCTTTAAAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * * *
1440950 AAAAAGGGAAAGTGTCATGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAA
1 -AAAA--G---GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAA
1441014 AG
60 AG
* * * * *
1441016 AAAAATGCGTCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
1 -AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * * * *
1441078 AAAAGGCGTCATGCTTTTTGAGAACTGGAAA-GTGCTACCAACTTGTGTGGGCTTT-AAAAG
1 AAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * * * * * *
1441138 AAAAATGCATCTTTCTCTTTGAGGACTAAAATGTGCCACCAACTTGTATGGGCTTTAAAAGG
1 -AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
* * * * *
1441200 AAAAGACGTCCTGCTTTTTGAGGATTGAAAA-GTGCCACCAACTTAG-GTGGGCTTTAAAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTT-GTGTAGGCTTTAAAAAG
* * * *
1441261 AAAATGCTTCCTGCTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
1441322 AAAAGGC
1 AAAAGGC
1441329 ATCTTACTCT
Statistics
Matches: 622, Mismatches: 97, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
59 47 0.08
60 64 0.10
61 385 0.62
62 73 0.12
64 1 0.00
66 9 0.01
67 43 0.07
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (61 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAG
Found at i:1441242 original size:183 final size:183
Alignment explanation
Indices: 1440525--1441339 Score: 907
Period size: 183 Copynumber: 4.4 Consensus size: 183
1440515 AAAGGAAATT
* * * * * * * * *
1440525 AAAACGCGTCCTACTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGCAGGCTTTGCAATGAGAA
1 AAAAGGCGTCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTGTAGGCTTT-AAAAGAAAA
* * * * **
1440590 A-GCGTCCTACTTTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAAGCTTTAAAAAGGAAAAGA
65 AGGCATCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGA
*
1440654 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
129 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
* * * * * *
1440709 AAAAGGTGT-CTAGCTCTTTGAGGACTAG-AAGTTTCCACCAACTTCTGT-GAGCTTTGAAAG-G
1 AAAAGGCGTCCT-GCTCTTTGAGAACTAGAAAG-TGCCACCAACTTGTGTAG-GCTTTAAAAGAA
* * *
1440770 AAAGTG--TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTTTGGGCTTTAAAA-GAAAA
63 AAAG-GCATCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
** * *
1440832 GGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCATCAACTTGTGCAGGCTTTAAAAGG
127 GACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
* *
1440889 AAAAGGCATCCTGCTCTTTGAGGACTA-AAATGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAA
1 AAAAGGCGTCCTGCTCTTTGAGAACTAGAAA-GTGCCACCAACTTGTGTAGGCTTTAAAA-GAAA
* * * * * *
1440953 AAGGGAAAGTGTCATGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA
64 AA-GG-CA---TCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
1441018 AAATG-CGTCATACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
124 AAA-GACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
* * * * *
1441078 AAAAGGCGTCATGCTTTTTGAGAACTGGAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAA
1 AAAAGGCGTCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAA
* * * *
1441143 TGCATCTTTCTCTTTGAGGACTAAAATGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGACG
66 GGCATCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * *
1441208 TCCTGCTTTTTGAGGATTGAAAAGTGCCACCAACTTAG-GTGGGCTTTAAAAGG
131 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTT-GTGTAGGCTTTAAAAGG
* * *
1441261 AAAATGCTTCCTGCTCTTTGA-AGACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAA
1 AAAAGGCGTCCTGCTCTTTGAGA-ACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAA
1441325 AGGCATCTTACTCTT
65 AGGCATCTTACTCTT
1441340 CGGGGGCTGA
Statistics
Matches: 538, Mismatches: 69, Indels: 49
0.82 0.11 0.07
Matches are distributed among these distances:
180 103 0.19
181 9 0.02
182 51 0.09
183 173 0.32
184 41 0.08
186 1 0.00
187 1 0.00
188 53 0.10
189 102 0.19
190 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (183 bp):
AAAAGGCGTCCTGCTCTTTGAGAACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAA
GGCATCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
Found at i:1441351 original size:122 final size:123
Alignment explanation
Indices: 1440533--1441328 Score: 861
Period size: 122 Copynumber: 6.5 Consensus size: 123
1440523 TTAAAACGCG
* * ** *
1440533 TCCTACTCTTTGGGGACTAG-AAGGTGCCACCAACTTGTGCAGGCTTTGCAATGAGAAA-GCGTC
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGA-AAAGGCGTC
* * * ** *
1440596 CTACTTTTTGAGGACT-AAAAGGTGCCACCAGCTTGTGTAAGCTTTAAAAAGGAAAA-GACG
65 CTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAATG-CA
* * *
1440656 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT-C
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC
* * * * * *
1440719 TAGCTCTTTGAGGACT-AGAAGTTTCCACCAACTTCTGTGAGCTTTGAAAGGAAAGTG--
66 T-GCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCA
* * *
1440776 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTTTGGGCTTTAAAA-GAAAAGGTGTCC
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC
* * ** *
1440839 TGCTCTTTGAGGACTGAAAGGTGCCATCAACTTGTGCAGGCTTTAAAAGGAAAAGGCA
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCA
* *
1440897 TCCTGCTCTTTGAGGACTA-AAATGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGGGAAA
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG-AAAA--G---
* * * * * *
1440961 GTGTCATGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAATGCG
60 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCA
* *
1441025 TCATACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCA
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
1441089 TGCTTTTTGAGAACTGGAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAATGCA
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCA
* * * * * *
1441147 TCTTTCTCTTTGAGGACTA-AAATGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGACGTCC
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC
* * *
1441211 TGCTTTTTGAGGATTGAAAAGTGCCACCAACTTAG-GTGGGCTTTAAAAGGAAAATGCT
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTT-GTGTGGGCTTTAAAAGGAAAATGCA
* *
1441269 TCCTGCTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1441329 ATCTTACTCT
Statistics
Matches: 577, Mismatches: 72, Indels: 49
0.83 0.10 0.07
Matches are distributed among these distances:
119 50 0.09
120 52 0.09
121 47 0.08
122 227 0.39
123 91 0.16
125 2 0.00
127 5 0.01
128 103 0.18
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (123 bp):
TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCA
Found at i:1443148 original size:28 final size:28
Alignment explanation
Indices: 1443092--1443162 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
1443082 GGAATAAAGC
* *
1443092 CGGGGTTGGAGTATCTCCTCGGAAGTAA
1 CGGGGTTGGAGTATCTCCCCGGAAATAA
1443120 CGGGGTTGGAGT-T-TCCCCGATGAAATAA
1 CGGGGTTGGAGTATCTCCCCG--GAAATAA
*
1443148 CGAGGTTGGAGTATC
1 CGGGGTTGGAGTATC
1443163 CTCGACTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 29 0.81
29 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCTCCCCGGAAATAA
Found at i:1443237 original size:108 final size:109
Alignment explanation
Indices: 1443100--1443323 Score: 326
Period size: 108 Copynumber: 2.1 Consensus size: 109
1443090 GCCGGGGTTG
* * * *
1443100 GAGTATCTCCTCGGAAGTAACGGGGTTGGAGTTTCCCCGATGAAATAACGAGGTTGGAGTATCCT
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCC
1443165 CGACTGTGAA-AAATTGGT-ATTTTTGAAAATAAAATCGGAGTTA
65 CGACTGTGAAGAAATTGGTGATTTTTGAAAATAAAATCGGAGTTA
* * *
1443208 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAATGGGGTTGGAGTATCCCC
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCC
* * * *
1443273 GATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTG
66 GACTGTGAAGAAATTGGTGATTTTTGAAAATAAAATCGGAGTTA
1443317 GAGTATC
1 GAGTATC
1443324 TCCGATTATA
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 27 0.26
108 47 0.46
109 29 0.28
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (109 bp):
GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCC
GACTGTGAAGAAATTGGTGATTTTTGAAAATAAAATCGGAGTTA
Found at i:1443241 original size:28 final size:27
Alignment explanation
Indices: 1443208--1443274 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
1443198 ATCGGAGTTA
**
1443208 GAGTATCCCCTCGGAAATAACGGGGTTG
1 GAGTATCCCCGAGG-AATAACGGGGTTG
* * *
1443236 GAGTATCCCCGATGATTAATGGGGTTG
1 GAGTATCCCCGAGGAATAACGGGGTTG
1443263 GAGTATCCCCGA
1 GAGTATCCCCGA
1443275 TTGTGAAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (27 bp):
GAGTATCCCCGAGGAATAACGGGGTTG
Found at i:1443322 original size:54 final size:51
Alignment explanation
Indices: 1443259--1443389 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 51
1443249 GATTAATGGG
* * *
1443259 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TCTTGAAAATAAAATCGGA
* *
1443313 GTTGGAGTATCTCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTCTTGAAAATAAAATCGGA
*
1443364 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
1443390 TTGAGAAACT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
51 34 0.52
52 4 0.06
53 10 0.15
54 18 0.27
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:1445795 original size:10 final size:9
Alignment explanation
Indices: 1445774--1445839 Score: 55
Period size: 10 Copynumber: 7.0 Consensus size: 9
1445764 CTTAAGCAGG
1445774 TTCTTTTCTT
1 TTCTTTT-TT
1445784 TTCTCTTTTT
1 TTCT-TTTTT
1445794 TTCTTTTTT
1 TTCTTTTTT
1445803 CTTCTTTTTT
1 -TTCTTTTTT
*
1445813 TAT-TGTTTT
1 T-TCTTTTTT
*
1445822 TTATTTTGTT
1 TTCTTTT-TT
1445832 TT-TTTTTT
1 TTCTTTTTT
1445840 GGAAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
8 3 0.06
9 19 0.39
10 24 0.49
11 3 0.06
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:1445797 original size:15 final size:16
Alignment explanation
Indices: 1445777--1445811 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1445767 AAGCAGGTTC
1445777 TTTTCTTTTCTCTT-T
1 TTTTCTTTTCTCTTCT
*
1445792 TTTTCTTTTTTCTTCT
1 TTTTCTTTTCTCTTCT
1445808 TTTT
1 TTTT
1445812 TTATTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTCTCTTCT
Found at i:1445822 original size:12 final size:11
Alignment explanation
Indices: 1445797--1445840 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1445787 TCTTTTTTTC
* *
1445797 TTTTTTCTTCT
1 TTTTTTTTTGT
*
1445808 TTTTTTATTGT
1 TTTTTTTTTGT
1445819 TTTTTATTTTGT
1 TTTTT-TTTTGT
1445831 TTTTTTTTTG
1 TTTTTTTTTG
1445841 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:1445828 original size:18 final size:18
Alignment explanation
Indices: 1445789--1445838 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
1445779 TTCTTTTCTC
* *
1445789 TTTTTTTCTTTTTTCTTC
1 TTTTTTTATTTTTTCTTA
1445807 TTTTTTTATTGTTTT-TTA
1 TTTTTTTATT-TTTTCTTA
1445825 TTTTGTTT-TTTTTT
1 TTTT-TTTATTTTTT
1445839 TGGAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 17 0.61
19 7 0.25
ACGTcount: A:0.04, C:0.06, G:0.04, T:0.86
Consensus pattern (18 bp):
TTTTTTTATTTTTTCTTA
Found at i:1458303 original size:79 final size:79
Alignment explanation
Indices: 1458149--1458354 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 79
1458139 ATACATCTCC
** * * * *
1458149 TGATGAAAAATTTAATATTTTGGAGATAAAAACGGGGTCGGAGTA-CTCCTTCAAAAATAACAGG
1 TGATGAAAAA-TCGATATTTTGAAAATAAAATCGGGGTTGGAGTATC-CCTTCAAAAATAACAGG
** *
1458213 GTTGGAGTATCCCAAA
64 GTCAGAATATCCCAAA
* * * * *
1458229 TGGTGAAAAATCGATGTTTTGGAAAT-AAAGCTGGGGTTGGAGTATCCCTTCGAAAATAACAGGG
1 TGATGAAAAATCGATATTTTGAAAATAAAATC-GGGGTTGGAGTATCCCTTCAAAAATAACAGGG
**
1458293 TCAGAATATCCCCGA
65 TCAGAATATCCCAAA
* * *
1458308 TTATGAAAGATCGATATTTTGAAAATAAAATCGAGGTTGGAGTATCC
1 TGATGAAAAATCGATATTTTGAAAATAAAATCGGGGTTGGAGTATCC
1458355 TCGATTGTGG
Statistics
Matches: 103, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
78 4 0.04
79 85 0.83
80 14 0.14
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (79 bp):
TGATGAAAAATCGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACAGGGT
CAGAATATCCCAAA
Found at i:1458360 original size:51 final size:51
Alignment explanation
Indices: 1458299--1458407 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
1458289 AGGGTCAGAA
*
1458299 TATCCCCGATTAT-GAAAGATCGATATTTTGAAAATAAAATCGAGGTTGGAG
1 TATCCCCGATTATGGAAA-ATCGATACTTTGAAAATAAAATCGAGGTTGGAG
* * * * *
1458350 TATCCTCGATTGTGGAAAATCGGTGCTTTGAAAATAAAATCGGGGTTGGAG
1 TATCCCCGATTATGGAAAATCGATACTTTGAAAATAAAATCGAGGTTGGAG
1458401 TATCCCC
1 TATCCCC
1458408 TCGGAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 46 0.92
52 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
TATCCCCGATTATGGAAAATCGATACTTTGAAAATAAAATCGAGGTTGGAG
Found at i:1460232 original size:14 final size:15
Alignment explanation
Indices: 1460206--1460237 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1460196 TATGAGGAAT
1460206 GTTGAGTTTTGGGAG
1 GTTGAGTTTTGGGAG
1460221 GTTGAG-TTTGGGAG
1 GTTGAGTTTTGGGAG
1460235 GTT
1 GTT
1460238 TACTGGTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (15 bp):
GTTGAGTTTTGGGAG
Found at i:1462883 original size:51 final size:50
Alignment explanation
Indices: 1462790--1462887 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
1462780 TCCGATGATG
**
1462790 AAAAATTGATATTTTGAAAATAAAAATGAGGTTGGAGAATCCCCGATAGT
1 AAAAATTGATATTTTGAAAATAAAAATGAGGTTAAAGAATCCCCGATAGT
* *
1462840 AAAAAGTTGATATTTTGAAAAT-AAAATCGGGGTTAAAGTATCCCCGAT
1 AAAAA-TTGATATTTTGAAAATAAAAAT-GAGGTTAAAGAATCCCCGAT
1462888 GGTGTAAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 10 0.24
51 32 0.76
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (50 bp):
AAAAATTGATATTTTGAAAATAAAAATGAGGTTAAAGAATCCCCGATAGT
Found at i:1463021 original size:77 final size:78
Alignment explanation
Indices: 1462930--1463211 Score: 267
Period size: 78 Copynumber: 3.6 Consensus size: 78
1462920 GAAAAATCGA
** *
1462930 TGTTTTAGAAATAAAACTAGG-GTTGGAGTATCCCTTTTAAAATAACGGGATTGGAGTATCTTCA
1 TGTTTTAGAAATAAAA-TAGGAGTTGGAGTATCCCTTAAAAAATAACGGGATTGGAGTATCTCCA
*
1462994 TGATG-GAAATCGG
65 TGATGAGAAATCAG
* *
1463007 TGTTTTAGAAATAAAATCGGGGTTGGAGTATCGCC-TAAAAAATAACAGGG-TTGGAGTAT-TCC
1 TGTTTTAGAAATAAAATAGGAGTTGGAGTATC-CCTTAAAAAATAAC-GGGATTGGAGTATCT-C
*
1463069 CGAT-AGTGAAAAATCAG
63 C-ATGA-TGAGAAATCAG
* * * * *
1463086 TATTTTAGAAATAAAATCGGTA-TTAGAGTATCCCTTCAAAAATAACGAGATTGGAGTATC-CCA
1 TGTTTTAGAAATAAAATAGG-AGTTGGAGTATCCCTTAAAAAATAACGGGATTGGAGTATCTCCA
*
1463149 -GATGGTGAAAATCAG
65 TGAT-GAG-AAATCAG
* * * *
1463164 TGTTTTAGAAATAAAATTGGAGTTGGAGTATCACTTCAGAAATAACGG
1 TGTTTTAGAAATAAAATAGGAGTTGGAGTATCCCTTAAAAAATAACGG
1463212 AGTTAGAGTA
Statistics
Matches: 171, Mismatches: 19, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
76 5 0.03
77 51 0.30
78 62 0.36
79 53 0.31
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (78 bp):
TGTTTTAGAAATAAAATAGGAGTTGGAGTATCCCTTAAAAAATAACGGGATTGGAGTATCTCCAT
GATGAGAAATCAG
Found at i:1463201 original size:78 final size:77
Alignment explanation
Indices: 1462903--1463258 Score: 334
Period size: 79 Copynumber: 4.5 Consensus size: 77
1462893 AAATGGGGTC
* * * *
1462903 GGAGTATCGCTGATGGTGAAAAATCGATGTTTTAGAAATAAAACTAGG-GTTGGAGTATCCCTTT
1 GGAGTATCCCAGATGGTG-AAAATCG-TGTTTTAGAAATAAAA-TCGGAGTTGGAGTATCCCTTC
* *
1462967 TAAAATAACGGGATT
63 AAAAATAACGAGATT
* *
1462982 GGAGTATCTTCATGAT-G-G-AAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCGCC-T
1 GGAGTATC-CCA-GATGGTGAAAATC-GTGTTTTAGAAATAAAATCGGAGTTGGAGTATC-CCTT
* *
1463043 AAAAAATAAC-AGGGTT
62 CAAAAATAACGA-GATT
* * *
1463059 GGAGTATTCCC-GATAGTGAAAAATCAGTATTTTAGAAATAAAATCGGTA-TTAGAGTATCCCTT
1 GGAGTA-TCCCAGATGGTG-AAAATC-GTGTTTTAGAAATAAAATCGG-AGTTGGAGTATCCCTT
1463122 CAAAAATAACGAGATT
62 CAAAAATAACGAGATT
* * *
1463138 GGAGTATCCCAGATGGTGAAAATCAGTGTTTTAGAAATAAAATTGGAGTTGGAGTATCACTTCAG
1 GGAGTATCCCAGATGGTGAAAATC-GTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCTTCAA
1463203 AAATAACG-GAGTT
65 AAATAACGAGA-TT
* * *
1463216 AGAGTATCCCAAATGGTGGAAAATCGATATTTTAGAAATAAAA
1 GGAGTATCCCAGATGGT-GAAAATCG-TGTTTTAGAAATAAAA
1463259 ATATCAATGA
Statistics
Matches: 235, Mismatches: 23, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
75 3 0.01
76 4 0.02
77 55 0.23
78 77 0.33
79 90 0.38
80 3 0.01
81 3 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (77 bp):
GGAGTATCCCAGATGGTGAAAATCGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCTTCAAA
AATAACGAGATT
Found at i:1463239 original size:157 final size:156
Alignment explanation
Indices: 1462915--1463258 Score: 412
Period size: 157 Copynumber: 2.2 Consensus size: 156
1462905 AGTATCGCTG
* * * ** *
1462915 ATGGTGAAAAATCGATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCCTTTTAAAATAACGGGA
1 ATGGTGAAAAATCGATATTTTAGAAATAAAACTAGGATTAGAGTATCCCTTCAAAAATAACGAGA
* * * *
1462980 TTGGAGTATCTTCATGATGGAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCGCCTAA
66 TTGGAGTATCTCCATGATGGAAATCAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCACCTAA
* *
1463045 AAAATAACAGGGTTGGAGTATTCCCG
131 AAAATAACAGGGTTAGAGTATTCCCA
* *
1463071 ATAGTGAAAAATC-AGTATTTTAGAAATAAAA-TCGGTATTAGAGTATCCCTTCAAAAATAACGA
1 ATGGTGAAAAATCGA-TATTTTAGAAATAAAACTAGG-ATTAGAGTATCCCTTCAAAAATAACGA
*
1463134 GATTGGAGTATC-CCA-GATGGTGAAAATCAGTGTTTTAGAAATAAAATTGGAGTTGGAGTATCA
64 GATTGGAGTATCTCCATGAT-G-G-AAATCAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCA
* * *
1463197 CTTCAGAAATAAC-GGAGTTAGAGTA-TCCCAA
126 CCTAAAAAATAACAGG-GTTAGAGTATTCCC-A
*
1463228 ATGGTGGAAAATCGATATTTTAGAAATAAAA
1 ATGGTGAAAAATCGATATTTTAGAAATAAAA
1463259 ATATCAATGA
Statistics
Matches: 160, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
154 3 0.02
155 7 0.04
156 68 0.43
157 81 0.51
158 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (156 bp):
ATGGTGAAAAATCGATATTTTAGAAATAAAACTAGGATTAGAGTATCCCTTCAAAAATAACGAGA
TTGGAGTATCTCCATGATGGAAATCAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCACCTAA
AAAATAACAGGGTTAGAGTATTCCCA
Found at i:1465621 original size:20 final size:21
Alignment explanation
Indices: 1465591--1465647 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
1465581 GTCAAAACCC
*
1465591 AGATATATCGATACAATGATA
1 AGATGTATCGATACAATGATA
* *
1465612 A-ATGTATCGATATAATTATA
1 AGATGTATCGATACAATGATA
1465632 AGTATGTATCGATACA
1 AG-ATGTATCGATACA
1465648 TTTTCTTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 17 0.57
21 1 0.03
22 12 0.40
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (21 bp):
AGATGTATCGATACAATGATA
Found at i:1466233 original size:68 final size:68
Alignment explanation
Indices: 1466120--1466300 Score: 209
Period size: 68 Copynumber: 2.7 Consensus size: 68
1466110 GTTTTATCAC
* * * * * *
1466120 CACAATATCTAATGACATGAAGTCACTTTCATTAAACTAAAACCTTGCAAGTCTGGTCACCATAA
1 CACAATATCTAGTGACATTAAGTCACTTTCATCAAACTAAAACCTTACAAGTCTGATCACCACAA
1466185 TGG
66 TGG
* * * * *
1466188 CACAACATCTAGTGACATTAAGTCATTTTCATCAAGCTAAGACCTTACAAGTCTGATCGCCACAA
1 CACAATATCTAGTGACATTAAGTCACTTTCATCAAACTAAAACCTTACAAGTCTGATCACCACAA
1466253 TGG
66 TGG
* * * * **
1466256 CATAATATCCAGTGACACTAAGTCACTTCCGCCAAACTAAAACCT
1 CACAATATCTAGTGACATTAAGTCACTTTCATCAAACTAAAACCT
1466301 CAAAGGTCTA
Statistics
Matches: 92, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (68 bp):
CACAATATCTAGTGACATTAAGTCACTTTCATCAAACTAAAACCTTACAAGTCTGATCACCACAA
TGG
Found at i:1467604 original size:22 final size:22
Alignment explanation
Indices: 1467556--1467605 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
1467546 TGATACATAA
* **
1467556 GTAAATGTATCGATACATGCTT
1 GTAATTGTATCGATACATGCAG
* *
1467578 ATAATTGTATCGATATATGCAG
1 GTAATTGTATCGATACATGCAG
1467600 GTAATT
1 GTAATT
1467606 TTGACCACTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (22 bp):
GTAATTGTATCGATACATGCAG
Found at i:1470053 original size:79 final size:79
Alignment explanation
Indices: 1469923--1470582 Score: 484
Period size: 79 Copynumber: 8.3 Consensus size: 79
1469913 TCATGGATTT
* * * * *
1469923 TTTTATTTCCAAAATAT-AATTTTCTTCACCATTGGGGATACTCCAACCCCGTTATTTTTGAGGG
1 TTTTATTTTCAAAATATCGA-TTT-TTCACCATTAGGGATACTCCAACCCCGTTATTTCTGAGAG
*
1469987 GATACTCTAACCCTGG
64 GATACTCTAACCCTAG
* ** *
1470003 TTTTACTTTT-AAAATATCAATTTTTCATTATTAGGGATACTCTAACCCCGTTATTTCTGAGAGG
1 TTTTA-TTTTCAAAATATCGATTTTTCACCATTAGGGATACTCCAACCCCGTTATTTCTGAGAGG
* *
1470067 ATACT-TCAACCCCAT
65 ATACTCT-AACCCTAG
* * * * *
1470082 TTTTATTTTCAAAATATCGATTTTCCACCA-TCGAGGATACTCCAACCTCATTATTTCTGAGGGG
1 TTTTATTTTCAAAATATCGATTTTTCACCATTAG-GGATACTCCAACCCCGTTATTTCTGAGAGG
* **
1470146 ATACTCCAACCCCGG
65 ATACTCTAACCCTAG
* * * * * * *
1470161 TTTTATTTTCAAAATATCAATTTTTCACCATCAAGGACACTTCAACCTCGTAATTT-TCGAGAGG
1 TTTTATTTTCAAAATATCGATTTTTCACCATTAGGGATACTCCAACCCCGTTATTTCT-GAGAGG
* *
1470225 ATACTTTAACCCTAT
65 ATACTCTAACCCTAG
* * * * ** *
1470240 TTTTATTTTCAAAATATCGATTTTTTACCATTTGAGATACTCTAACCCTATTATTTCTGAGAAGA
1 TTTTATTTTCAAAATATCGATTTTTCACCATTAGGGATACTCCAACCCCGTTATTTCTGAGAGGA
* *
1470305 TACTCTAA-TCTCAT
66 TACTCTAACCCT-AG
* * * *
1470319 TTTTA-TTTCTAAAATATCGATTTTTCACTATTGGGGATACTCCAACCCTGTTATTTCTGAGGGG
1 TTTTATTTTC-AAAATATCGATTTTTCACCATTAGGGATACTCCAACCCCGTTATTTCTGAGAGG
* *
1470383 ATACT-TGAACCTTAT
65 ATACTCT-AACCCTAG
* * * * * * *
1470398 TTTTA-TTTCTATAATATCGATTTTTTACCA-TCGGAGATACTCTAACTCTGTTATTT-TCGAGG
1 TTTTATTTTC-AAAATATCGATTTTTCACCATTAGG-GATACTCCAACCCCGTTATTTCT-GAGA
* * *
1470460 GGA-AGCTCCAACCCCAT
63 GGATA-CTCTAACCCTAG
* * * * ** ** *
1470477 TTTTATTTCCAAAATATCAATTTTTCACCA-TCGAGGATACTTCAACCCTATTATTTCCAAGGGG
1 TTTTATTTTCAAAATATCGATTTTTCACCATTAG-GGATACTCCAACCCCGTTATTTCTGAGAGG
* *
1470541 ATACTCCAA-CCTCG
65 ATACTCTAACCCTAG
* *
1470555 ATTTTATTTCCAAAATATCAATTTTTCA
1 -TTTTATTTTCAAAATATCGATTTTTCA
1470583 TCGGGGAATG
Statistics
Matches: 473, Mismatches: 85, Indels: 45
0.78 0.14 0.07
Matches are distributed among these distances:
78 22 0.05
79 424 0.90
80 22 0.05
81 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (79 bp):
TTTTATTTTCAAAATATCGATTTTTCACCATTAGGGATACTCCAACCCCGTTATTTCTGAGAGGA
TACTCTAACCCTAG
Found at i:1470362 original size:237 final size:236
Alignment explanation
Indices: 1469923--1470582 Score: 669
Period size: 237 Copynumber: 2.8 Consensus size: 236
1469913 TCATGGATTT
* * * * *
1469923 TTTTATTTCCAAAATAT-AATTTTCTTCACCATTGGGGATACTCCAACCCCGTTATTTTTGAGGG
1 TTTTATTTTCAAAATATCAA-TTT-TTCACCA-TCGGGATACTTCAACCTCGTTATTTTCGAGGG
** ** *
1469987 GATACTCTAACCCTGGTTTTACTTTT-AAAATATCAATTTTTCATTATTAGGGATACTCTAACCC
63 GATACTCTAACCCTATTTTTA-TTTTCAAAATATCAATTTTTCACCATTAGAGATACTCTAACCC
** * *
1470051 CGTTATTTCTGAGAGGATACT-TCAACCCCATTTTTATTT-TCAAAATATCGATTTTCCACCATC
127 TATTATTTCTGAGAGGATACTCT-AACCTCATTTTTATTTCT-AAAATATCGATTTTTCACCATC
*
1470114 GAGGATACTCCAA-CCTCATTATTTCTGAGGGGATACTCCAACCCCGG
190 GAGGATACTCCAACCCT-ATTATTTCTGAGGGGATACTCCAACCCCAG
* * * *
1470161 TTTTATTTTCAAAATATCAATTTTTCACCATCAAGGACACTTCAACCTCGTAATTTTCGAGAGGA
1 TTTTATTTTCAAAATATCAATTTTTCACCATC-GGGATACTTCAACCTCGTTATTTTCGAGGGGA
* * * *
1470226 TACTTTAACCCTATTTTTATTTTCAAAATATCGATTTTTTACCATTTGAGATACTCTAACCCTAT
65 TACTCTAACCCTATTTTTATTTTCAAAATATCAATTTTTCACCATTAGAGATACTCTAACCCTAT
* * * * *
1470291 TATTTCTGAGAAGATACTCTAATCTCATTTTTATTTCTAAAATATCGATTTTTCACTATTGGGGA
130 TATTTCTGAGAGGATACTCTAACCTCATTTTTATTTCTAAAATATCGATTTTTCACCATCGAGGA
* ** ** *
1470356 TACTCCAACCCTGTTATTTCTGAGGGGATACTTGAACCTTAT
195 TACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCCAG
* * *
1470398 TTTTA-TTTCTATAATATCGATTTTTTACCATCGGAGATAC-TCTAA-CTCTGTTATTTTCGAGG
1 TTTTATTTTC-AAAATATCAATTTTTCACCATCGG-GATACTTC-AACCTC-GTTATTTTCGAGG
* * * *
1470460 GGA-AGCTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACCA-TCGAGGATACT-TCAA
62 GGATA-CTCTAACCCTATTTTTATTTTCAAAATATCAATTTTTCACCATTAGA-GATACTCT-AA
** * * * *
1470522 CCCTATTATTTCCAAGGGGATACTCCAACCTCGA-TTTTATTTCCAAAATATCAATTTTTCA
124 CCCTATTATTTCTGAGAGGATACTCTAACCTC-ATTTTTATTTCTAAAATATCGATTTTTCA
1470583 TCGGGGAATG
Statistics
Matches: 352, Mismatches: 56, Indels: 29
0.81 0.13 0.07
Matches are distributed among these distances:
236 20 0.06
237 305 0.87
238 25 0.07
239 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (236 bp):
TTTTATTTTCAAAATATCAATTTTTCACCATCGGGATACTTCAACCTCGTTATTTTCGAGGGGAT
ACTCTAACCCTATTTTTATTTTCAAAATATCAATTTTTCACCATTAGAGATACTCTAACCCTATT
ATTTCTGAGAGGATACTCTAACCTCATTTTTATTTCTAAAATATCGATTTTTCACCATCGAGGAT
ACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCCAG
Found at i:1470580 original size:158 final size:158
Alignment explanation
Indices: 1469922--1470580 Score: 611
Period size: 158 Copynumber: 4.2 Consensus size: 158
1469912 TTCATGGATT
* * * ** *
1469922 TTTTTATTTCCAAAATAT-AATTTTCTTCACCATTGGGGATACTCCAACCCCGTTATTTTTGAGG
1 TTTTTATTTCCAAAATATCGATTTT-TT-ACCATCGGAGATACTCCAACCCTATTATTTCTGAGG
* ** * ** *
1469986 GGATACTCTAACCCTGGTTTTACTTT-TAAAATATCAATTTTTCATTAT-TAGGGATAC-TCTAA
64 GGATACTCCAACCCCAGTTTTA-TTTCCAAAATATCAATTTTTCACCATCGA-GGATACTTC-AA
** * *
1470048 CCCCGTTATTTCTGAGAGGATACTTCAACCCCA
126 CCCTATTATTTCCGAGAGGATACTTCAACCCTA
* **
1470081 TTTTTATTTTCAAAATATCGATTTTCCACCATC-GAGGATACTCCAA-CCTCATTATTTCTGAGG
1 TTTTTATTTCCAAAATATCGATTTTTTACCATCGGA-GATACTCCAACCCT-ATTATTTCTGAGG
* * * *
1470144 GGATACTCCAACCCCGGTTTTATTTTCAAAATATCAATTTTTCACCATCAAGGACACTTCAACCT
64 GGATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTTCAACC-
* *
1470209 CGTA--ATTTTCGAGAGGATACTTTAACCCTA
128 C-TATTATTTCCGAGAGGATACTTCAACCCTA
* ** * **
1470239 TTTTTATTTTCAAAATATCGATTTTTTACCATTTGAGATACTCTAACCCTATTATTTCTGAGAAG
1 TTTTTATTTCCAAAATATCGATTTTTTACCATCGGAGATACTCCAACCCTATTATTTCTGAGGGG
* * * * * * * * * * *
1470304 ATACTCTAATCTCATTTTTATTTCTAAAATATCGATTTTTCACTATTGGGGATACTCCAACCCTG
66 ATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTTCAACCCTA
* * * *
1470369 TTATTTCTGAGGGGATACTTGAACCTTA
131 TTATTTCCGAGAGGATACTTCAACCCTA
* * * * *
1470397 TTTTTATTTCTATAATATCGATTTTTTACCATCGGAGATACTCTAACTCTGTTATTT-TCGAGGG
1 TTTTTATTTCCAAAATATCGATTTTTTACCATCGGAGATACTCCAACCCTATTATTTCT-GAGGG
*
1470461 GA-AGCTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTTCAACCC
65 GATA-CTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTTCAACCC
* * * *
1470525 TATTATTTCCAAGGGGATACTCCAACCTCGA
129 TATTATTTCCGAGAGGATACTTCAACC-CTA
*
1470556 -TTTTATTTCCAAAATATCAATTTTT
1 TTTTTATTTCCAAAATATCGATTTTT
1470581 CATCGGGGAA
Statistics
Matches: 409, Mismatches: 76, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
156 1 0.00
157 9 0.02
158 367 0.90
159 27 0.07
160 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (158 bp):
TTTTTATTTCCAAAATATCGATTTTTTACCATCGGAGATACTCCAACCCTATTATTTCTGAGGGG
ATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTTCAACCCTA
TTATTTCCGAGAGGATACTTCAACCCTA
Found at i:1471641 original size:135 final size:135
Alignment explanation
Indices: 1471372--1471630 Score: 356
Period size: 135 Copynumber: 1.9 Consensus size: 135
1471362 ATGACCATCC
* *
1471372 AAGACTAATAGAATGAGCGATTTGTCCGATAGTTTGTCACCCCTTCATATTGATCATCATCTTTT
1 AAGACTAATAGAATGAGCGATTCGTCCGATAGTCTGTCACCCCTTCATATTGATCATCATCTTTT
* ** * * * *
1471437 ATTTAAGTCTAGCGTGCTTTGGCCCTTCGGATCGCCCGAAGTTCTTAAAGGTCGGGCCCGTGTGT
66 ATTTAAGTCGAGCACGCTTTGACCCTTCAGATCGCCCGAAGTTCTTAAAGGCCGGGCCCATGTGT
1471502 CGACA
131 CGACA
* * *
1471507 AAGACTAATAGGATGAGTGATTCGTCCGATAGTCTGTCACCCTTTCATATTGATCATCATCTTTT
1 AAGACTAATAGAATGAGCGATTCGTCCGATAGTCTGTCACCCCTTCATATTGATCATCATCTTTT
* * * **
1471572 ATTTTAAGTCGAGCACGCTTTGACCTTTTAGATTGTTCGAAGTTCTTAAAGGCCGGGCC
66 A-TTTAAGTCGAGCACGCTTTGACCCTTCAGATCGCCCGAAGTTCTTAAAGGCCGGGCC
1471631 ACATTGCGAC
Statistics
Matches: 107, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
135 61 0.57
136 46 0.43
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (135 bp):
AAGACTAATAGAATGAGCGATTCGTCCGATAGTCTGTCACCCCTTCATATTGATCATCATCTTTT
ATTTAAGTCGAGCACGCTTTGACCCTTCAGATCGCCCGAAGTTCTTAAAGGCCGGGCCCATGTGT
CGACA
Found at i:1473752 original size:20 final size:20
Alignment explanation
Indices: 1473711--1473752 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1473701 GCACCCTCAC
* *
1473711 AAACACAAATAAGATATGAA
1 AAACACAAATAAGAAATCAA
1473731 AAACACAAGATAA-AAATCAA
1 AAACACAA-ATAAGAAATCAA
1473751 AA
1 AA
1473753 CGTATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.69, C:0.12, G:0.07, T:0.12
Consensus pattern (20 bp):
AAACACAAATAAGAAATCAA
Done.