Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 72 of 163
Found at i:23643151 original size:26 final size:26
Alignment explanation
Indices: 23643067--23643292 Score: 267
Period size: 26 Copynumber: 8.5 Consensus size: 26
23643057 GGGTATAACA
23643067 GTCATTTTACCCTAT-GTGGGTATTTCG
1 GTCATTTTACCCT-TCG-GGGTATTTCG
*
23643094 GTCATTTGACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCG-GGGTATTTCG
* *
23643121 ATCATTGTACCCTTCGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
* *
23643147 GTCATTTTACTCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCG-GGGTATTTCG
* * * *
23643174 GT-TTTTTCACCCTTCAAGGGCATTTCA
1 GTCATTTT-ACCCTTC-GGGGTATTTCG
* *
23643201 GTCATTTTACCTTTCGGGGTATTTCA
1 GTCATTTTACCCTTCGGGGTATTTCG
*
23643227 GTCATTTTACCTTTCGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
*
23643253 GTCATTTTACCCTTCGGGATATTTCG
1 GTCATTTTACCCTTCGGGGTATTTCG
23643279 GTCATTTTACCCTT
1 GTCATTTTACCCTT
23643293 TCGATCTTTT
Statistics
Matches: 174, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
26 100 0.57
27 70 0.40
28 4 0.02
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTCGGGGTATTTCG
Found at i:23643310 original size:43 final size:44
Alignment explanation
Indices: 23643248--23643333 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
23643238 TTTCGGGGTA
*
23643248 TTTCGGTCATTTTACCCTTCG-GGATATTTCGGTCATTTTACCC
1 TTTCGATCATTTTACCCTTCGAGGATATTTCGGTCATTTTACCC
* * *
23643291 TTTCGATCTTTTTATCCTTCGAGGTTATTTCGGTCATTTTACC
1 TTTCGATCATTTTACCCTTCGAGGATATTTCGGTCATTTTACC
23643334 ACGAATCGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 18 0.47
44 20 0.53
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.48
Consensus pattern (44 bp):
TTTCGATCATTTTACCCTTCGAGGATATTTCGGTCATTTTACCC
Found at i:23648228 original size:12 final size:12
Alignment explanation
Indices: 23648211--23648250 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
23648201 TAAGTTTGTA
23648211 AATATTATATTT
1 AATATTATATTT
*
23648223 AATATT-TA-TG
1 AATATTATATTT
23648233 AATATTATATTT
1 AATATTATATTT
23648245 AATATT
1 AATATT
23648251 TACGAGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.29
11 4 0.17
12 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
AATATTATATTT
Found at i:23648239 original size:22 final size:22
Alignment explanation
Indices: 23648211--23648252 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
23648201 TAAGTTTGTA
23648211 AATATTATATTTAATATTTATG
1 AATATTATATTTAATATTTATG
23648233 AATATTATATTTAATATTTA
1 AATATTATATTTAATATTTA
23648253 CGAGTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATATTATATTTAATATTTATG
Found at i:23653605 original size:8 final size:8
Alignment explanation
Indices: 23653592--23653616 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23653582 AAAGATATTT
23653592 TAATTAAA
1 TAATTAAA
23653600 TAATTAAA
1 TAATTAAA
23653608 TAATTAAA
1 TAATTAAA
23653616 T
1 T
23653617 GAGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:23656427 original size:35 final size:35
Alignment explanation
Indices: 23656381--23656451 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
23656371 CCGAATATCA
23656381 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
1 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
23656416 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
1 CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
23656451 C
1 C
23656452 TCTTTGCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (35 bp):
CCATAGGAGGGGAGAAGAGATTTTATTCAAGCTTT
Found at i:23657294 original size:25 final size:24
Alignment explanation
Indices: 23657242--23657297 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
23657232 TAGCTTGTAT
* *
23657242 GAGCTTACCGATTTTAGCTCCTGA
1 GAGCTTACCGATTTCAGCTCCGGA
23657266 GAGCTTACCGATATTCAGCT-CGGA
1 GAGCTTACCGAT-TTCAGCTCCGGA
23657290 GGAGCTTA
1 -GAGCTTA
23657298 TGTTTATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCCGGA
Found at i:23672257 original size:4 final size:4
Alignment explanation
Indices: 23672248--23672293 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
23672238 GGATTACTTG
* *
23672248 TACA TACA TACA TACA TACA TACA TACA TTCA TACA TACA CACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
23672294 TATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:23690467 original size:18 final size:19
Alignment explanation
Indices: 23690429--23690471 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
23690419 AGAATAAGAA
* *
23690429 AAATATAATGTGGACATTG
1 AAATGTAATGTGGAAATTG
23690448 AAATGTAATGT-GAAATTG
1 AAATGTAATGTGGAAATTG
23690466 AAATGT
1 AAATGT
23690472 GTAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (19 bp):
AAATGTAATGTGGAAATTG
Found at i:23692169 original size:12 final size:12
Alignment explanation
Indices: 23692152--23692181 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
23692142 TTTCAAAAGG
23692152 GTACACAGTCTA
1 GTACACAGTCTA
23692164 GTACACAGTCTA
1 GTACACAGTCTA
23692176 GTACAC
1 GTACAC
23692182 GGGCGTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (12 bp):
GTACACAGTCTA
Found at i:23701269 original size:188 final size:192
Alignment explanation
Indices: 23700948--23701327 Score: 624
Period size: 188 Copynumber: 2.0 Consensus size: 192
23700938 TTTGCTGATA
* *
23700948 GTGCGTCCTGCTTGGAGCATTATCTCTCTACAAATTTCAACCCTCATTTGGGACAAAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
* * * *
23701013 TCATATATATCCTGAGATATATTTTCAAAACTCATCTCGTCAATATTAATGCATTGTGATAAATA
66 TCACATATATCCTGAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* *
23701078 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGTAAAATTTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
*
23701140 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAA-TTCAACCCTCACTTGGGAC-AAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
*
23701203 -C-CATATATCCTGAGATATATTTTCAGAACCCATCTCATCAATATTAATGCACTGTGATAAATA
66 TCACATATATCCTGAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* *
23701266 ATTTACTAAAATATTGGATCAAACTAGTATTAAGAATGTGAAAAAATTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
23701328 TCATCCCAAA
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 115 0.65
189 1 0.01
190 10 0.06
191 18 0.10
192 32 0.18
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (192 bp):
GTGCGTCCTACTTGGAGCATTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
TCACATATATCCTGAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
Found at i:23701925 original size:15 final size:15
Alignment explanation
Indices: 23701897--23701951 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
23701887 AAGAAAAAAA
23701897 TATAATA-AACATAAT
1 TATAATATAA-ATAAT
23701912 TATAATATAAATAA-
1 TATAATATAAATAAT
* *
23701926 TA-CATCTAAATAAT
1 TATAATATAAATAAT
*
23701940 TATAATTTAAAT
1 TATAATATAAAT
23701952 TTAAATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.27
14 4 0.12
15 18 0.55
16 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAATATAAATAAT
Found at i:23706932 original size:182 final size:183
Alignment explanation
Indices: 23706620--23706989 Score: 724
Period size: 182 Copynumber: 2.0 Consensus size: 183
23706610 TAGTACAGGT
*
23706620 TTTATGTCCTTATGTTATTCATGATTCAATCAAATTAATCCCGCCTATAAATCGAGGGCATAGCA
1 TTTAAGTCCTTATGTTATTCATGATTCAATCAAATTAATCCCGCCTATAAATCGAGGGCATAGCA
23706685 AGGGCCTTGACCTCCTTAAATCAAGAAATCTCACTTTTGACCCTTTAAAAATTATAAAATTTTAA
66 AGGGCCTTGACCTCCTTAAATCAAGAAATCTCACTTTTGACCCTTTAAAAATTATAAAATTTTAA
23706750 TTTAGTATATTGTAAAATTATACTTTAACCTTTAAAAAATAATAAAA-TTTAA
131 TTTAGTATATTGTAAAATTATACTTTAACCTTTAAAAAATAATAAAATTTTAA
23706802 TTTAAGTCCTTATGTTATTCATGATTCAATCAAATTAATCCCGCCTATAAATCGAGGGCATAGCA
1 TTTAAGTCCTTATGTTATTCATGATTCAATCAAATTAATCCCGCCTATAAATCGAGGGCATAGCA
23706867 AGGGCCTTGACCTCCTTAAATCAAGAAATCTCACTTTTGACCCTTTAAAAATTATAAAATTTTAA
66 AGGGCCTTGACCTCCTTAAATCAAGAAATCTCACTTTTGACCCTTTAAAAATTATAAAATTTTAA
23706932 TTTAGTATATTGTAAAATTATACTTTAACCTTTAAAAAATAATAAAATTTTAA
131 TTTAGTATATTGTAAAATTATACTTTAACCTTTAAAAAATAATAAAATTTTAA
23706985 TTTAA
1 TTTAA
23706990 TCTTTTCAAA
Statistics
Matches: 186, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
182 176 0.95
183 10 0.05
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (183 bp):
TTTAAGTCCTTATGTTATTCATGATTCAATCAAATTAATCCCGCCTATAAATCGAGGGCATAGCA
AGGGCCTTGACCTCCTTAAATCAAGAAATCTCACTTTTGACCCTTTAAAAATTATAAAATTTTAA
TTTAGTATATTGTAAAATTATACTTTAACCTTTAAAAAATAATAAAATTTTAA
Found at i:23706980 original size:30 final size:30
Alignment explanation
Indices: 23706944--23707012 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
23706934 TAGTATATTG
*
23706944 TAAAATTATACTTTAACCTTTAAAAAATAA
1 TAAAATTATAATTTAACCTTTAAAAAATAA
* * ** *
23706974 TAAAATTTTAATTTAATCTTTTCAAAATTA
1 TAAAATTATAATTTAACCTTTAAAAAATAA
23707004 TAAATATTA
1 TAAA-ATTA
23707013 AAAATATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAAATTATAATTTAACCTTTAAAAAATAA
Found at i:23712181 original size:15 final size:15
Alignment explanation
Indices: 23712161--23712190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23712151 GAAGTGTCCA
*
23712161 AAATATGTTTAATTT
1 AAATATATTTAATTT
23712176 AAATATATTTAATTT
1 AAATATATTTAATTT
23712191 GGGTTGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATATATTTAATTT
Found at i:23714911 original size:19 final size:19
Alignment explanation
Indices: 23714887--23714926 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23714877 GTTTAAACTC
* *
23714887 TATTTTAGAGTAATTAAAA
1 TATTTTAAAATAATTAAAA
*
23714906 TATTTTAAAATAATTTAAA
1 TATTTTAAAATAATTAAAA
23714925 TA
1 TA
23714927 ATATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTTTAAAATAATTAAAA
Found at i:23721448 original size:2 final size:2
Alignment explanation
Indices: 23721441--23721470 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23721431 ATTGAATGGT
23721441 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23721471 ATTGAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23726805 original size:78 final size:78
Alignment explanation
Indices: 23726712--23727067 Score: 570
Period size: 78 Copynumber: 4.6 Consensus size: 78
23726702 AACTAATAGT
* ** *
23726712 GGATAATATATGTATATACATGTATATGTTCTTGACTTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
23726777 TATATATAAAGTTC
65 TATATATAAAGTTC
*
23726791 GGATATATATGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
23726856 ATATATAAAGTTC
66 ATATATAAAGTTC
* **
23726869 GGATATATATGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGCCTGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
23726934 ATATATAAAGTTC
66 ATATATAAAGTTC
*
23726947 AGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
*
23727012 ATATATAAAATTC
66 ATATATAAAGTTC
* * * *
23727025 AGATGTATGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
23727068 TGTTGAATGT
Statistics
Matches: 262, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
77 14 0.05
78 244 0.93
79 4 0.02
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:23727110 original size:77 final size:77
Alignment explanation
Indices: 23726722--23727168 Score: 386
Period size: 78 Copynumber: 5.8 Consensus size: 77
23726712 GGATAATATA
* ** * * *
23726722 TGTATATACATGTATATGTTCTTGACTTTAGTTAAAAGTATGTATGTTATATTTATATATATAAA
1 TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGAATGTTATA-TTATATATACAAA
* ** * *
23726787 GTTCGGATATATA
65 ATTCAAATGTATG
* * *
23726800 TGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAA
1 TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGAATGTTATA-TTATATATACAAA
* ** * *
23726865 GTTCGGATATATA
65 ATTCAAATGTATG
* ** *
23726878 TGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGCCTGTTATATTTATATATATAAA
1 TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGAATGTTATA-TTATATATACAAA
* * * *
23726943 GTTCAGATATATA
65 ATTCAAATGTATG
* *
23726956 TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATATATAAA
1 TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGAATGTTATA-TTATATATACAAA
*
23727021 ATTCAGATGTATG
65 ATTCAAATGTATG
* * * *
23727034 TGTATATACATGAATAAGTT-TTGAATTTAGTT-AATGT-TGAATGTTATA-TATGTTTACAAGA
1 TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGAATGTTATATTATATATACAA-A
*
23727095 GGTTCAAATAGGTATG
65 -ATTCAAAT--GTATG
* * * ** *
23727111 TATATATA-A-GTATAAATTCTTGGATTTTA-TTAAAAGTATGGGTGTTACATATATATAT
1 TGTATATACATGAATAAATTCTT-GAATTTAGTTAAAAGTATGAATGTTATAT-TATATAT
23727169 GTATAGTATA
Statistics
Matches: 327, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
73 8 0.02
74 1 0.00
75 23 0.07
76 9 0.03
77 34 0.10
78 247 0.76
80 5 0.02
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (77 bp):
TGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGAATGTTATATTATATATACAAAA
TTCAAATGTATG
Found at i:23727403 original size:78 final size:76
Alignment explanation
Indices: 23727237--23727428 Score: 217
Period size: 78 Copynumber: 2.5 Consensus size: 76
23727227 ATATTGAGTA
* * * *
23727237 TAAGTATGAAATTATATATGTATATGTTAAATTCGAAAATGTATGTGTATACAAGTATAAGTACT
1 TAAGTATGAAATTATATATGTATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTACT
23727302 TGTTTCGAATG
66 TGTTTCGAATG
* * * *
23727313 TAAGTATAAAATTATATATGTATATATGTTAGATTCGAATATGTATATATGTACATGTATAAGTT
1 TAAGTATGAAATTATATATG--TATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTA
*
23727378 TTTGTATT-GAAATG
64 CTTGT-TTCG-AATG
** * *
23727392 -GGGTATGAAATTATATAGGTATATGTGAGATTCGAAT
1 TAAGTATGAAATTATATATGTATATGTTAGATTCGAAT
23727429 GTTAAATGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
76 36 0.37
78 56 0.57
79 6 0.06
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.41
Consensus pattern (76 bp):
TAAGTATGAAATTATATATGTATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTACT
TGTTTCGAATG
Found at i:23727810 original size:41 final size:42
Alignment explanation
Indices: 23727765--23727880 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
23727755 CATTTCGGAC
* **
23727765 TATAAGTCTAGCAGGCTAAAAGCCGGTG-TACTGAATCAGG-T
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAT-CTGAATCAGGCT
*
23727806 TATAAGCCTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGCT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCT
*
23727848 T-TAAGCCTAACAGGCTAAGTGCCGGTGAATCTG
1 TATAAGCCTAGCAGGCTAAGTGCCGGTG-ATCTG
23727881 TTTAAATTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
41 58 0.88
42 8 0.12
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (42 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCT
Found at i:23730793 original size:108 final size:108
Alignment explanation
Indices: 23730626--23730874 Score: 471
Period size: 108 Copynumber: 2.3 Consensus size: 108
23730616 AATTTGGCTA
* * *
23730626 AACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAATACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCC
23730691 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
23730734 AACGAGAAATCGAAACCCAATACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAATACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCC
23730799 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
23730842 AACGAGAAATCGAAACCCAATACCTTAGGGCAC
1 AACGAGAAATCGAAACCCAATACCTTAGGGCAC
23730875 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 138 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAATACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
Found at i:23733244 original size:44 final size:44
Alignment explanation
Indices: 23733172--23733721 Score: 228
Period size: 44 Copynumber: 12.7 Consensus size: 44
23733162 ACCTGATGCG
* * * *
23733172 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
23733216 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* ** * * *
23733260 ATTTGCTCTGCTGTAATCTCAGGGAGATAAGA-CC--TGATACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * *
23733301 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * * * * *
23733345 ATCCGCCCCACTGTAATCTCAAGAAGATAGGATTAC-TAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* ***
23733389 ATCTGCTCCGCTGT-A-CTCAGGGAGATAAGAT-CTAAAATTCGTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTGTT--TCA
* * * * * *
23733433 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CC--TGGTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
23733474 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTGGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * * *
23733518 ATCCGCTCCAATGTAATCTCAGGGAGATAGGATTACTAT-CTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* * *
23733562 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TTGTTTCA
* * * * *
23733608 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTAATG---CG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTGTTTCA
* * * ** *
23733649 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
*
23733693 ATCCGCTCCACTGTAA-CTTCAGGGAGATA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATA
23733722 GGATAGTGTC
Statistics
Matches: 372, Mismatches: 102, Indels: 64
0.69 0.19 0.12
Matches are distributed among these distances:
40 4 0.01
41 84 0.23
42 24 0.06
43 5 0.01
44 194 0.52
45 11 0.03
46 50 0.13
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
Found at i:23733338 original size:129 final size:128
Alignment explanation
Indices: 23733108--23733418 Score: 462
Period size: 129 Copynumber: 2.4 Consensus size: 128
23733098 CGCAACGTCG
* * * * * * * * *
23733108 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGACCTGATACGA
*
23733173 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCA
65 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
* *
23733237 GGGAGATAGGATTACTAGCTTCAATTTGCTCTGCTGTAATCTCAGGGAGATAAGACCTGATACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGACCTGATACGA
*
23733302 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
65 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
* *
23733366 AGAAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT-ACTCAGGGAGATAAGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAACTCAGGGAGATAAGA
23733419 TCTAAAATTC
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
127 15 0.09
128 1 0.01
129 149 0.90
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAACTCAGGGAGATAAGACCTGATACGAT
CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCCCCACTGTAATCTCA
Found at i:23733683 original size:175 final size:175
Alignment explanation
Indices: 23733270--23733765 Score: 730
Period size: 175 Copynumber: 2.9 Consensus size: 175
23733260 ATTTGCTCTG
* *
23733270 CTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * * * *
23733335 CTTTGTTTTAATCCGCCCCACTGTAATCTCAAGAAGATAGGATTACTAGCTTCAATCTGCTCCGC
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
**
23733400 TGT-A-CTCAGGGAGATAAGATCTAAAATTCGTCAGTCTGTTCCA
131 TGTAATCTCAGGGAGATAAGATCTAAAATTCGTCAGTCTACTCCA
* *
23733443 CTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* *
23733508 CTTGGTTTTAATCCGCTCCAATGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
* * *
23733573 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCA
131 TGTAATCTCAGGGAGATAAGATCTAAAATTCGTCAGTCTACTCCA
* *
23733618 CTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * * * **
23733683 CTTCATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTTTG
66 CTTCGTTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
*
23733746 TTGTAATCTCAGGGAGATAA
130 CTGTAATCTCAGGGAGATAA
23733766 AACCTGTATA
Statistics
Matches: 292, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
173 123 0.42
174 37 0.13
175 132 0.45
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (175 bp):
CTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGC
TGTAATCTCAGGGAGATAAGATCTAAAATTCGTCAGTCTACTCCA
Found at i:23743472 original size:108 final size:108
Alignment explanation
Indices: 23743335--23743612 Score: 493
Period size: 108 Copynumber: 2.6 Consensus size: 108
23743325 AATTTGGCTA
* * * * *
23743335 AACGTGAAATCGAAACCCAGTACCATAGGGCACGTTCCTTGAATTTCCAAACGCAAAATATTGTC
1 AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
23743400 TTATTTTGAAAATTTTTGAAAAGGATATTAACTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAACTCATTTGGTCG
23743443 AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
23743508 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAACTCATTTGGTCG
*
23743551 AATGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATT
1 AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATT
23743613 NNNNNNNNNN
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 163 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAACTCATTTGGTCG
Found at i:23743956 original size:3 final size:3
Alignment explanation
Indices: 23743907--23743945 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
23743897 NNNNNNNNNN
23743907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23743946 GCACATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23747488 original size:19 final size:19
Alignment explanation
Indices: 23747464--23747510 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23747454 CGACGTCTTT
*
23747464 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTACA-TCA
23747483 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
23747502 TATGCATTA
1 TTTGCATTA
23747511 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:23747680 original size:24 final size:24
Alignment explanation
Indices: 23747653--23747700 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23747643 TAAAAAACTT
* *
23747653 CAAAGGGAGATGCAAGACCAGCTA
1 CAAAGGCAAATGCAAGACCAGCTA
* *
23747677 CAAATGCAAATGCAAGAGCAGCTA
1 CAAAGGCAAATGCAAGACCAGCTA
23747701 GCTAAGATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (24 bp):
CAAAGGCAAATGCAAGACCAGCTA
Found at i:23754709 original size:52 final size:54
Alignment explanation
Indices: 23754630--23754765 Score: 213
Period size: 52 Copynumber: 2.6 Consensus size: 54
23754620 ACTTCACCAG
*
23754630 AAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCCT-AAAAAAAATG-
1 AAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCCTAAAAAAAAAAGA
* * *
23754682 GAGAGACCAAGGTGAAAACCCGTAAAGGGCGCTTTGAATTCTAAAAAAAAAAGA
1 AAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCCTAAAAAAAAAAGA
*
23754736 AAGAGGCCAAGGTGAAAACCCGCAAAGGGC
1 AAGAGACCAAGGTGAAAACCCGCAAAGGGC
23754766 CCCTTGAGAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 39 0.52
53 9 0.12
54 27 0.36
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (54 bp):
AAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAATCCTAAAAAAAAAAGA
Found at i:23756068 original size:45 final size:45
Alignment explanation
Indices: 23755926--23756092 Score: 146
Period size: 44 Copynumber: 3.8 Consensus size: 45
23755916 TCTTATTTCT
* * * **
23755926 CTGAAGTTGCAGTGGAGCAGATTAAAG-TCA-CTAATCTTATCCCC
1 CTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCGAGCCTTATCCCC
* * * * *
23755970 TTGAAGTTGCAGTGGGGCAGA-TCGAAGTTA-CCAGCCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCGAGCCTTATCCCC
*
23756014 CTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAGTCC-TATCCCC
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAG-CCTTATCCCC
** *
23756059 CTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGA
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
23756093 ATCTTATTTC
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 57 0.56
45 41 0.41
46 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (45 bp):
CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAGCCTTATCCCC
Found at i:23757851 original size:21 final size:22
Alignment explanation
Indices: 23757814--23757856 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23757804 GTGATTTTTA
23757814 TGTTTAATTTTGC-TTTTATTT
1 TGTTTAATTTTGCTTTTTATTT
*
23757835 TGTTTTATTTT-CTTTTTTATTT
1 TGTTTAATTTTGC-TTTTTATTT
23757857 GTGAACTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 10 0.53
22 8 0.42
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (22 bp):
TGTTTAATTTTGCTTTTTATTT
Found at i:23757914 original size:18 final size:18
Alignment explanation
Indices: 23757881--23757919 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
23757871 TGTTATTATA
23757881 ATTATTATTACTATTTTT
1 ATTATTATTACTATTTTT
*
23757899 ATTATTATTAGTATTTTT
1 ATTATTATTACTATTTTT
23757917 ATT
1 ATT
23757920 TTGTTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTATTATTACTATTTTT
Found at i:23759592 original size:17 final size:17
Alignment explanation
Indices: 23759572--23759604 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23759562 CAAATCACAG
23759572 ATCTCACCAAAACATAA
1 ATCTCACCAAAACATAA
23759589 ATCTCACCAAAACATA
1 ATCTCACCAAAACATA
23759605 GATTTTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (17 bp):
ATCTCACCAAAACATAA
Found at i:23761440 original size:44 final size:44
Alignment explanation
Indices: 23761391--23761475 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
23761381 GGTTTTTTTC
*
23761391 TCCCACTTAAACTTTGATTAATGTAGATTATTTTAATATTAGTT
1 TCCCACTTAAACTCTGATTAATGTAGATTATTTTAATATTAGTT
* *
23761435 TCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTA
1 TCCCACTTAAACTCTGATTAATGTAGATTATTTTAATATTA
23761476 TTTGACCTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (44 bp):
TCCCACTTAAACTCTGATTAATGTAGATTATTTTAATATTAGTT
Found at i:23769575 original size:17 final size:17
Alignment explanation
Indices: 23769553--23769586 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23769543 GACATCTTTA
23769553 ATTTTTCATGCTAAAAT
1 ATTTTTCATGCTAAAAT
*
23769570 ATTTTTCATGTTAAAAT
1 ATTTTTCATGCTAAAAT
23769587 GCTTGTAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTTTTCATGCTAAAAT
Found at i:23770002 original size:17 final size:17
Alignment explanation
Indices: 23769982--23770297 Score: 210
Period size: 17 Copynumber: 17.9 Consensus size: 17
23769972 TTTTTAAATG
23769982 AAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
*
23769999 AAATTTTAGAAACAC-A
1 AAATTTTTGAAACACGA
** *
23770015 ATTTTTTTTTAAACACGA
1 A-AATTTTTGAAACACGA
23770033 AAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
* * *
23770050 GAATTTTTTCAAAACACAA
1 -AAATTTTT-GAAACACGA
*
23770069 AAATTTTTTAAAACACGA
1 AAA-TTTTTGAAACACGA
* *
23770087 AAATTTGTGAAACACTA
1 AAATTTTTGAAACACGA
* * * *
23770104 GAGTTGTTGAAAACACGG
1 AAATTTTTG-AAACACGA
*
23770122 AAATTTGTGAAA-AC-A
1 AAATTTTTGAAACACGA
*
23770137 CAAATTTTTGAAACACGG
1 -AAATTTTTGAAACACGA
*
23770155 AAATTTTTAGAAAACACAA
1 AAATTTTT-G-AAACACGA
* *
23770174 AAATTTTTGGATCAACG-
1 AAATTTTTGAAAC-ACGA
*
23770191 AAATTTTTGAAAACACAA
1 AAATTTTTG-AAACACGA
*
23770209 AAATTTTCT-AAACACCA
1 AAATTTT-TGAAACACGA
*
23770226 GAATTTTTGAAAACACGA
1 AAATTTTTG-AAACACGA
**
23770244 GGATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
** *
23770261 ATTTTTTTTTGAAAATACGA
1 A--AATTTTTG-AAACACGA
23770281 AAATTTTTGAAAACACG
1 AAATTTTTG-AAACACG
23770298 GAATTTTTTT
Statistics
Matches: 231, Mismatches: 48, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
16 16 0.07
17 100 0.43
18 74 0.32
19 33 0.14
20 8 0.03
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (17 bp):
AAATTTTTGAAACACGA
Found at i:23770029 original size:34 final size:36
Alignment explanation
Indices: 23769985--23770346 Score: 155
Period size: 35 Copynumber: 10.2 Consensus size: 36
23769975 TTAAATGAAA
* *
23769985 TTTTTGAAACACGAAAATTTTAGAAACAC-A-ATTT
1 TTTTTAAAACACGAAAATTTTAGAAACACGAGAATT
* *
23770019 TTTTTTAAACACGAAAATTTTTGAAACACGAGAATT
1 TTTTTAAAACACGAAAATTTTAGAAACACGAGAATT
* * *
23770055 TTTTCAAAACACAAAAATTTTTTA-AAACACGA-AA-A
1 TTTTTAAAACACGAAAA--TTTTAGAAACACGAGAATT
* * * * * *
23770090 TTTGTGAAACACTAGAGTTGTT-GAAAACACG-GAAAT
1 TTTTTAAAACACGAAAATT-TTAG-AAACACGAGAATT
* * *
23770126 TTGTGAAAACAC--AAATTTTTGAAACACG-GAAATT
1 TTTTTAAAACACGAAAATTTTAGAAACACGAG-AATT
** * * * *
23770160 TTTAGAAAACACAAAAATTTTTGGATCAACGA-AA-T
1 TTTTTAAAACACGAAAATTTTAGAAAC-ACGAGAATT
* * ** *
23770195 TTTTGAAAACACAAAAATTTTCTAAACACCAGAA-T
1 TTTTTAAAACACGAAAATTTTAGAAACACGAGAATT
* ** * *
23770230 TTTTGAAAACACGAGGATTTTTGAAACACGA-ATTTT
1 TTTTTAAAACACGAAAATTTTAGAAACACGAGA-ATT
* *
23770266 TTTTTGAAAATACGAAAATTTTTGAAAACACG-GAATTTT
1 TTTTT-AAAACACGAAAATTTTAG-AAACACGAGAA--TT
* * *
23770305 TTTTTGAAAACATGAGAATTTT-GAAAGACGA-AATCT
1 TTTTT-AAAACACGAAAATTTTAGAAACACGAGAAT-T
23770341 TTTTTA
1 TTTTTA
23770347 TTTTTATTTT
Statistics
Matches: 255, Mismatches: 48, Indels: 49
0.72 0.14 0.14
Matches are distributed among these distances:
33 12 0.05
34 50 0.20
35 74 0.29
36 51 0.20
37 34 0.13
38 13 0.05
39 21 0.08
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (36 bp):
TTTTTAAAACACGAAAATTTTAGAAACACGAGAATT
Found at i:23770057 original size:35 final size:35
Alignment explanation
Indices: 23769985--23770306 Score: 207
Period size: 35 Copynumber: 9.1 Consensus size: 35
23769975 TTAAATGAAA
* * *
23769985 TTTTTGAAACACGAAAATTTTAGAAACAC-A-ATTT
1 TTTTTAAAACACGAAAATTTTTGAAACACGAGA-AT
*
23770019 TTTTTTAAACACGAAAATTTTTGAAACACGAGAAT
1 TTTTTAAAACACGAAAATTTTTGAAACACGAGAAT
* * *
23770054 TTTTTCAAAACACAAAAATTTTTTAAAACACGA-AAA
1 TTTTT-AAAACACGAAAA-TTTTTGAAACACGAGAAT
* * * * * *
23770090 TTTGTGAAACACTAGAGTTGTTGAAAACACG-GAAAT
1 TTTTTAAAACACGAAAATTTTTG-AAACACGAG-AAT
* *
23770126 TTGTGAAAACAC--AAATTTTTGAAACACG-GAAAT
1 TTTTTAAAACACGAAAATTTTTGAAACACGAG-AAT
* * * *
23770159 TTTTAGAAAACACAAAAATTTTTGGATCAACGA-AAT
1 TTTT-TAAAACACGAAAATTTTTGAAAC-ACGAGAAT
* * *
23770195 TTTTGAAAACACAAAAATTTTCT-AAACACCAGAAT
1 TTTTTAAAACACGAAAATTTT-TGAAACACGAGAAT
* ** *
23770230 TTTTGAAAACACGAGGATTTTTGAAACACGA-ATTTT
1 TTTTTAAAACACGAAAATTTTTGAAACACGAGA--AT
*
23770266 TTTTTGAAAATACGAAAATTTTTGAAAACACG-GAAT
1 TTTTT-AAAACACGAAAATTTTTG-AAACACGAGAAT
23770302 TTTTT
1 TTTTT
23770307 TTTGAAAACA
Statistics
Matches: 230, Mismatches: 38, Indels: 38
0.75 0.12 0.12
Matches are distributed among these distances:
33 15 0.07
34 50 0.22
35 69 0.30
36 57 0.25
37 31 0.13
38 8 0.03
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (35 bp):
TTTTTAAAACACGAAAATTTTTGAAACACGAGAAT
Found at i:23770132 original size:18 final size:18
Alignment explanation
Indices: 23769982--23770297 Score: 235
Period size: 18 Copynumber: 17.9 Consensus size: 18
23769972 TTTTTAAATG
23769982 AAATTTTTG-AAACACGA
1 AAATTTTTGAAAACACGA
*
23769999 AAATTTTAG-AAACAC-A
1 AAATTTTTGAAAACACGA
** **
23770015 ATTTTTTTTTAAACACGA
1 AAATTTTTGAAAACACGA
23770033 AAATTTTTG-AAACACGA
1 AAATTTTTGAAAACACGA
* * *
23770050 GAATTTTTTCAAAACACAA
1 -AAATTTTTGAAAACACGA
*
23770069 AAATTTTTTAAAACACGA
1 AAATTTTTGAAAACACGA
* *
23770087 AAATTTGTG-AAACACTA
1 AAATTTTTGAAAACACGA
* * * *
23770104 GAGTTGTTGAAAACACGG
1 AAATTTTTGAAAACACGA
*
23770122 AAATTTGTGAAAACAC--
1 AAATTTTTGAAAACACGA
*
23770138 AAATTTTTG-AAACACGG
1 AAATTTTTGAAAACACGA
*
23770155 AAATTTTTAGAAAACACAA
1 AAATTTTT-GAAAACACGA
* *
23770174 AAATTTTTG-GATCAACG-
1 AAATTTTTGAAAAC-ACGA
*
23770191 AAATTTTTGAAAACACAA
1 AAATTTTTGAAAACACGA
*
23770209 AAATTTTCT--AAACACCA
1 AAATTTT-TGAAAACACGA
*
23770226 GAATTTTTGAAAACACGA
1 AAATTTTTGAAAACACGA
**
23770244 GGATTTTTG-AAACACGA
1 AAATTTTTGAAAACACGA
** *
23770261 ATTTTTTTTTGAAAATACGA
1 A--AATTTTTGAAAACACGA
23770281 AAATTTTTGAAAACACG
1 AAATTTTTGAAAACACG
23770298 GAATTTTTTT
Statistics
Matches: 234, Mismatches: 47, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.03
16 15 0.06
17 82 0.35
18 95 0.41
19 28 0.12
20 8 0.03
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (18 bp):
AAATTTTTGAAAACACGA
Found at i:23770309 original size:22 final size:22
Alignment explanation
Indices: 23770247--23770326 Score: 77
Period size: 18 Copynumber: 4.0 Consensus size: 22
23770237 AACACGAGGA
23770247 TTTTTG-AAACAC--GAATTTT
1 TTTTTGAAAACACGAGAATTTT
* *
23770266 TTTTTGAAAATACGA-AA---A
1 TTTTTGAAAACACGAGAATTTT
23770284 TTTTTGAAAACACG-GAATTTT
1 TTTTTGAAAACACGAGAATTTT
*
23770305 TTTTTGAAAACATGAGAATTTT
1 TTTTTGAAAACACGAGAATTTT
23770327 GAAAGACGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
18 15 0.31
19 6 0.12
20 5 0.10
21 15 0.31
22 7 0.15
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTTTGAAAACACGAGAATTTT
Found at i:23770325 original size:39 final size:38
Alignment explanation
Indices: 23770229--23770330 Score: 145
Period size: 39 Copynumber: 2.7 Consensus size: 38
23770219 AACACCAGAA
*
23770229 TTTTTGAAAACACGAGGATTTTTG-AAACACGAATTTT
1 TTTTTGAAAACACGAGAATTTTTGAAAACACGAATTTT
* *
23770266 TTTTTGAAAATACGAAAATTTTTGAAAACACGGAATTTT
1 TTTTTGAAAACACGAGAATTTTTGAAAACAC-GAATTTT
*
23770305 TTTTTGAAAACATGAGAA-TTTTGAAA
1 TTTTTGAAAACACGAGAATTTTTGAAA
23770331 GACGAAATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 21 0.37
38 14 0.25
39 22 0.39
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (38 bp):
TTTTTGAAAACACGAGAATTTTTGAAAACACGAATTTT
Found at i:23770344 original size:39 final size:36
Alignment explanation
Indices: 23770229--23770345 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 36
23770219 AACACCAGAA
*
23770229 TTTTTGAAAACACGAGGATTTTTGAAACACGAATTTT
1 TTTTTGAAAACACGA-GAATTTTGAAACACGAATTTT
* *
23770266 TTTTTGAAAATACGAAAATTTTTGAAAACACGGAATTTT
1 TTTTTGAAAACACGAGAA-TTTTG-AAACAC-GAATTTT
* * * *
23770305 TTTTTGAAAACATGAGAATTTTGAAAGACGAAATCT
1 TTTTTGAAAACACGAGAATTTTGAAACACGAATTTT
23770341 TTTTT
1 TTTTT
23770346 ATTTTTATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
36 11 0.16
37 24 0.35
38 11 0.16
39 22 0.32
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTTTGAAAACACGAGAATTTTGAAACACGAATTTT
Found at i:23770596 original size:19 final size:19
Alignment explanation
Indices: 23770574--23770616 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
23770564 GACACAAAGA
* *
23770574 TTTTGGAACACAGGAATTT
1 TTTTGGAAAACACGAATTT
*
23770593 TTTTCGAAAACACGAATTT
1 TTTTGGAAAACACGAATTT
23770612 TTTTG
1 TTTTG
23770617 AATATTTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTTGGAAAACACGAATTT
Found at i:23770793 original size:14 final size:14
Alignment explanation
Indices: 23770774--23770800 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23770764 GAATTAAATT
23770774 AAAAATATAAAAAC
1 AAAAATATAAAAAC
23770788 AAAAATATAAAAA
1 AAAAATATAAAAA
23770801 TGCATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATATAAAAAC
Found at i:23770954 original size:8 final size:8
Alignment explanation
Indices: 23770935--23770990 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 8
23770925 TTAAACCTTT
23770935 TTTTTCTC
1 TTTTTCTC
23770943 -TTTTCTC
1 TTTTTCTC
23770950 TTTTT-TC
1 TTTTTCTC
23770957 TTTTT-TCC
1 TTTTTCT-C
23770965 TTTTT-TC
1 TTTTTCTC
*
23770972 --TTTCTT
1 TTTTTCTC
23770978 TTTTTCTC
1 TTTTTCTC
23770986 TTTTT
1 TTTTT
23770991 TTCTCTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 3 0.07
6 1 0.02
7 16 0.39
8 21 0.51
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCTC
Found at i:23770958 original size:14 final size:14
Alignment explanation
Indices: 23770932--23771018 Score: 74
Period size: 14 Copynumber: 6.4 Consensus size: 14
23770922 AAATTAAACC
23770932 TTTT-TTTTCTCTT
1 TTTTCTTTTCTCTT
* *
23770945 TTCTCTTTTTTCTT
1 TTTTCTTTTCTCTT
*
23770959 TTTTCCTTTTTTCTT
1 TTTT-CTTTTCTCTT
23770974 TCTTT-TTTTCTC-T
1 T-TTTCTTTTCTCTT
*
23770987 TTTT-TTCTCTCTT
1 TTTTCTTTTCTCTT
**
23771000 TTTTCTCCTCTCTT
1 TTTTCTTTTCTCTT
23771014 TTTTC
1 TTTTC
23771019 GGCCTGCCTC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
12 9 0.14
13 10 0.16
14 30 0.48
15 11 0.17
16 3 0.05
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCTTTTCTCTT
Found at i:23770961 original size:22 final size:21
Alignment explanation
Indices: 23770936--23770991 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
23770926 TAAACCTTTT
*
23770936 TTTTCTCTTTTCTCTTTTTTC
1 TTTTCTCTTTTTTCTTTTTTC
*
23770957 TTTTTTCCTTTTTTCTTTCTTT-
1 TTTTCT-CTTTTTTCTTT-TTTC
23770979 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
23770992 TCTCTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.40
22 15 0.50
23 3 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTCTTTTTTCTTTTTTC
Found at i:23770979 original size:10 final size:10
Alignment explanation
Indices: 23770933--23771006 Score: 69
Period size: 10 Copynumber: 7.0 Consensus size: 10
23770923 AATTAAACCT
23770933 TTTTTTTCTC
1 TTTTTTTCTC
* *
23770943 TTTTCTCTTTTT
1 TTTT-T-TTCTC
23770955 TCTTTTTTC-C
1 T-TTTTTTCTC
*
23770965 TTTTTTCTTTC
1 TTTTTT-TCTC
23770976 TTTTTTTCTC
1 TTTTTTTCTC
23770986 TTTTTTTCTC
1 TTTTTTTCTC
23770996 TCTTTTTTCTC
1 T-TTTTTTCTC
23771007 CTCTCTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.10
10 20 0.38
11 19 0.37
12 5 0.10
13 3 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:23771168 original size:19 final size:20
Alignment explanation
Indices: 23771144--23771193 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
23771134 GCCTGTTGCA
23771144 TTTTTTTTCTGCTTTG--TT
1 TTTTTTTTCTGCTTTGCCTT
**
23771162 TTTTTTTTGGGGCTTTGCCTT
1 TTTTTTTT-CTGCTTTGCCTT
23771183 TTTTTTTTCTG
1 TTTTTTTTCTG
23771194 GCCTGGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 6 0.24
20 1 0.04
21 10 0.40
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (20 bp):
TTTTTTTTCTGCTTTGCCTT
Found at i:23771278 original size:7 final size:7
Alignment explanation
Indices: 23771262--23771380 Score: 91
Period size: 7 Copynumber: 16.9 Consensus size: 7
23771252 TGAATTAATA
*
23771262 TTTTTAT
1 TTTTTCT
23771269 TTTTTC-
1 TTTTTCT
23771275 TTTTTCT
1 TTTTTCT
23771282 TTTTTCT
1 TTTTTCT
*
23771289 TTCTT-T
1 TTTTTCT
*
23771295 TTCTTCT
1 TTTTTCT
**
23771302 TCCTTCT
1 TTTTTCT
*
23771309 TCTTTCT
1 TTTTTCT
*
23771316 TCTTTCT
1 TTTTTCT
23771323 TTCTTTCT
1 TT-TTTCT
23771331 TTCTTTCT
1 TT-TTTCT
23771339 TTCTTTCT
1 TT-TTTCT
*
23771347 TTCTTCT
1 TTTTTCT
*
23771354 CTTTTC-
1 TTTTTCT
*
23771360 TTTCTCT
1 TTTTTCT
23771367 TTTTTCT
1 TTTTTCT
23771374 TTCTTTC
1 TT-TTTC
23771381 CCGATCAACC
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
6 16 0.17
7 53 0.55
8 27 0.28
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCT
Found at i:23771293 original size:4 final size:4
Alignment explanation
Indices: 23771277--23771380 Score: 117
Period size: 4 Copynumber: 26.0 Consensus size: 4
23771267 ATTTTTTCTT
* *
23771277 TTTC TTT- TTTC TTTC TTTT TCTTC -TTC CTTC -TTC TTTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
*
23771322 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTCTC TTTTC TTTC TCTTT TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC TTTC
23771373 TTTC TTTC
1 TTTC TTTC
23771381 CCGATCAACC
Statistics
Matches: 88, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
3 12 0.14
4 65 0.74
5 9 0.10
6 2 0.02
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:23771521 original size:20 final size:21
Alignment explanation
Indices: 23771495--23771547 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
23771485 TCTTCTTTGC
*
23771495 TCTTTTTTTCTT-CTT-TTTT
1 TCTTTTTTGCTTGCTTGTTTT
*
23771514 TCCTTTTTGCTTGCTTGTTTT
1 TCTTTTTTGCTTGCTTGTTTT
23771535 TCTTTTTT-CTTGC
1 TCTTTTTTGCTTGC
23771548 CTCTTGGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 8 0.28
21 11 0.38
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.74
Consensus pattern (21 bp):
TCTTTTTTGCTTGCTTGTTTT
Found at i:23771883 original size:29 final size:29
Alignment explanation
Indices: 23771841--23771945 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
23771831 TAAAACTTCT
* * *
23771841 AGGGTTAAAGTGTAATTTTGGAAAATTTA
1 AGGGTCAAAATGTAATTTTAGAAAATTTA
* * *
23771870 AGGGTTAAAATGTAATTTCAAAAAAGTTT-
1 AGGGTCAAAATGTAATTTTAGAAAA-TTTA
*
23771899 AGGGTCAAAATATAATTTTAAGAAAATTTA
1 AGGGTCAAAATGTAATTTT-AGAAAATTTA
* *
23771929 GGGGTCAAAATGCAATT
1 AGGGTCAAAATGTAATT
23771946 GTGTAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
29 40 0.65
30 22 0.35
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (29 bp):
AGGGTCAAAATGTAATTTTAGAAAATTTA
Found at i:23772276 original size:80 final size:79
Alignment explanation
Indices: 23772154--23772469 Score: 508
Period size: 79 Copynumber: 4.0 Consensus size: 79
23772144 GAGTTATGAG
* * * * *
23772154 TTTTTTTTAAAAAATAAAAATTTAAAAAATACCTCAGTGTGTGACCCGAGGCTCAACTCACCTCT
1 TTTTTTTTGAAAAACAGAAA-TTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCT
23772219 CGCAATATGAGTTGA
65 CGCAATATGAGTTGA
* *
23772234 TTTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAACTCACATCT
1 -TTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCT
*
23772299 CGCATTATGAGTTGA
65 CGCAATATGAGTTGA
*
23772314 TTATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTC
1 TTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTC
23772379 GCAATATGAGTTGA
66 GCAATATGAGTTGA
* *
23772393 -TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTTATCTCTC
1 TTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTC
23772457 GCAATATGAGTTG
66 GCAATATGAGTTG
23772470 CGATCCGAGG
Statistics
Matches: 220, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
78 74 0.34
79 75 0.34
80 54 0.25
81 17 0.08
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (79 bp):
TTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGA
Found at i:23772435 original size:78 final size:78
Alignment explanation
Indices: 23772128--23772469 Score: 512
Period size: 78 Copynumber: 4.4 Consensus size: 78
23772118 GCGACCTAAA
* * * * *
23772128 GCTCAACTCACCTCTCG-AGTTATGAG-T--TTTTTTTAAAAAATAAAAATTTAAAAAATACCTC
1 GCTCAACTCACCTCTCGCA-ATATGAGTTGATTTTTTTGAAAAACAGAAA-TTGAAAAATACCTC
*
23772189 AGTGTGTGACCCGAG
64 AGCGTGTGACCCGAG
23772204 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAACAGAAATTGAAAAATACCTC
*
23772269 AGCGTGTGATCCGAG
64 AGCGTGTGACCCGAG
* *
23772284 GCTCAACTCACATCTCGCATTATGAGTTGATTATTTTTGAAAAACAGAAATTGAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTTGAAAAACAGAAATTGAAAAATACCTCA
23772349 GCGTGTGACCCGAG
65 GCGTGTGACCCGAG
23772363 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
23772428 CGTGTGACCCGAG
66 CGTGTGACCCGAG
* *
23772441 GCTCAACTTATCTCTCGCAATATGAGTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTG
23772470 CGATCCGAGG
Statistics
Matches: 245, Mismatches: 14, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
76 23 0.09
77 2 0.01
78 75 0.31
79 75 0.31
80 54 0.22
81 16 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (78 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAG
CGTGTGACCCGAG
Found at i:23772466 original size:157 final size:158
Alignment explanation
Indices: 23772178--23772469 Score: 516
Period size: 157 Copynumber: 1.8 Consensus size: 158
23772168 TAAAAATTTA
*
23772178 AAAAATACCTCAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
1 AAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT
* *
23772243 GAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAACTCACATCTCGCATTATG
65 GAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACATCTCGCAATATG
23772308 AGTTGATTATTTTTGAAAAACAGAAATTG
130 AGTTGATTATTTTTGAAAAACAGAAATTG
23772337 AAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
1 AAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
*
23772401 AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTTATC-TCTCGCAATATG
66 AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCA-CATCTCGCAATATG
23772465 AGTTG
130 AGTTG
23772470 CGATCCGAGG
Statistics
Matches: 128, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
157 72 0.56
158 1 0.01
159 55 0.43
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (158 bp):
AAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACATCTCGCAATATGA
GTTGATTATTTTTGAAAAACAGAAATTG
Found at i:23772562 original size:116 final size:116
Alignment explanation
Indices: 23772358--23772585 Score: 402
Period size: 116 Copynumber: 2.0 Consensus size: 116
23772348 AGCGTGTGAC
*
23772358 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGAAAAACAGAAATTGAAAAATAC
* * *
23772423 CTCAGCGTGTGACCCGAGGCTCAACTTATCTCTCGCAATATGAGTTGCGAT
66 CTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGCGAT
*
23772474 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGACTTTTTTGAAAAACAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGAAAAACAGAAATTGAAAAATAC
*
23772539 CTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCGATATGAGTTG
66 CTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTG
23772586 ATTTTTTTGA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 106 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (116 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTTGAAAAACAGAAATTGAAAAATAC
CTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGCGAT
Found at i:23772603 original size:78 final size:76
Alignment explanation
Indices: 23772474--23773347 Score: 878
Period size: 78 Copynumber: 11.8 Consensus size: 76
23772464 GAGTTGCGAT
23772474 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGACTTTTTTGAAAAACAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCA-TATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATAC
*
23772539 CTCAACGTGTGAC
64 CTCAGCGTGTGAC
*
23772552 CCGAGGCTCAACTCAACTCTCGCGATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATAC
* *
23772617 CTCAGTGTGTGAG
64 CTCAGCGTGTGAC
* *
23772630 CCGAGGTTCAACTCACCTCTCGC-----A----ATTTTTAGAAAAACAGAAATTGAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCT
* *
23772686 CAGTGTGTGAG
66 CAGCGTGTGAC
* *
23772697 CCGAGGTTCAACTCACCTCTCGC-----A----ATTTTTAGAAAAACAGAAATTGAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCT
* *
23772753 CAGTGTGTGAG
66 CAGCGTGTGAC
* *
23772764 CCGAGGTTCAACTCACCTCTCGC-----A----ATTTTTAGAAAAACAGAAATTGAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCT
* *
23772820 CAGTGTGTGAG
66 CAGCGTGTGAC
* *
23772831 CCGAGGTTCAACTCACCTCTCGC-----A----ATTTTTAGAAAAACAGAAATTGAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCT
23772887 CAGCGTGTGAC
66 CAGCGTGTGAC
* *
23772898 CCGAGACTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATAC
*
23772963 CTCAGCGTGTGAT
64 CTCAGCGTGTGAC
*
23772976 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCA-TATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATAC
23773041 CTCAGCGTGTGAC
64 CTCAGCGTGTGAC
* * * *
23773054 CCGAGACTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTTAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGA-TTTTTTGAAAAACAGAAA-TT-GAA-AAA
* * * *
23773119 TACTTCGGCATGTG-T
61 TACCTCAGCGTGTGAC
* *
23773134 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAATTAAAAAAAATA
1 CCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTTGAAAAACAGAAATT--GAAAAATA
* * *
23773198 CCTCGGAGTGCGAC
63 CCTCAGCGTGTGAC
* * * *
23773212 CCGAGACTCAACTCACCT-TACGCAATATGAGCTGA-TTTTTGAAAAATAGAAATT-TAAAATAC
1 CCGAGGCTCAACTCACCTCT-CGC-ATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATAC
* **
23773274 CTCAGTGTACGAC
64 CTCAGCGTGTGAC
* *
23773287 CCGGGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTGCAAAAACAGAAATTGAAAAA
1 CCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTTG-AAAAACAGAAATTGAAAAA
23773348 ATAATTTTTG
Statistics
Matches: 724, Mismatches: 49, Indels: 47
0.88 0.06 0.06
Matches are distributed among these distances:
67 260 0.36
68 1 0.00
72 1 0.00
73 1 0.00
75 52 0.07
76 13 0.02
77 22 0.03
78 321 0.44
79 4 0.01
80 35 0.05
81 14 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (76 bp):
CCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCT
CAGCGTGTGAC
Found at i:23772606 original size:194 final size:195
Alignment explanation
Indices: 23772276--23772655 Score: 663
Period size: 194 Copynumber: 2.0 Consensus size: 195
23772266 CTCAGCGTGT
*
23772276 GATCCGAGGCTCAACTCACATCTCGCATTATGAGTTGATTATTTTTGAAAAACAGAAATTGAAAA
1 GATCCGAGGCTCAACTCACATCTCGCATTATGAGTTGACTATTTTTGAAAAACAGAAATTGAAAA
* *
23772341 ATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
66 ATACCTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAAA
* *
23772406 CAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTTATCTCTCGCAATATGAGTTGC
131 CAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGC
*
23772471 GATCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGACT-TTTTTGAAAAACAGAAATTGAAAA
1 GATCCGAGGCTCAACTCACATCTCGCATTATGAGTTGACTATTTTTGAAAAACAGAAATTGAAAA
*
23772535 ATACCTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCGATATGAGTTGATTTTTTTGAAAAA
66 ATACCTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAAA
* * *
23772600 CAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGCAAT
131 CAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
23772656 TTTTAGAAAA
Statistics
Matches: 175, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
194 137 0.78
195 38 0.22
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (195 bp):
GATCCGAGGCTCAACTCACATCTCGCATTATGAGTTGACTATTTTTGAAAAACAGAAATTGAAAA
ATACCTCAACGTGTGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAAA
CAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGC
Found at i:23772696 original size:67 final size:67
Alignment explanation
Indices: 23772588--23772999 Score: 635
Period size: 67 Copynumber: 6.0 Consensus size: 67
23772578 ATGAGTTGAT
*
23772588 TTTTTTGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
1 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
23772653 AA
66 AA
23772655 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
1 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
23772720 AA
66 AA
23772722 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
1 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
23772787 AA
66 AA
23772789 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
1 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
23772854 AA
66 AA
* * ** *
23772856 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGACTCAACTCACCTATCGC
1 TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
23772921 AATATGAGTTGA
66 ------A----A
* * * *
23772933 TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAACTCACCTCTCG
1 -TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCG
23772998 CA
65 CA
23773000 TTATGAGTTG
Statistics
Matches: 324, Mismatches: 10, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
67 260 0.80
72 1 0.00
73 1 0.00
77 1 0.00
78 61 0.19
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (67 bp):
TTTTTAGAAAAACAGAAATTGAAAAATACCTCAGTGTGTGAGCCGAGGTTCAACTCACCTCTCGC
AA
Found at i:23774205 original size:1 final size:1
Alignment explanation
Indices: 23774201--23774258 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
23774191 TTTTTCCTTC
* * * * * * *
23774201 TTTTTTCTTTTTCTTTTTTGTTTTTTTTTGTTTTTGTTTTTTTTGTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23774259 AGGCATAATA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:23774217 original size:23 final size:23
Alignment explanation
Indices: 23774191--23774241 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
23774181 TTCATCTTGA
23774191 TTTTTCCTTCTTTTTTCTTTTTC
1 TTTTTCCTTCTTTTTTCTTTTTC
** * * *
23774214 TTTTTTGTTTTTTTTTGTTTTTG
1 TTTTTCCTTCTTTTTTCTTTTTC
23774237 TTTTT
1 TTTTT
23774242 TTTGTTTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTCCTTCTTTTTTCTTTTTC
Found at i:23774218 original size:14 final size:13
Alignment explanation
Indices: 23774201--23774258 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
23774191 TTTTTCCTTC
* *
23774201 TTTTTTCTTTTTC
1 TTTTTTGTTTTTT
23774214 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
* *
23774227 TTTGTT-TTTGTT
1 TTTTTTGTTTTTT
23774239 TTTTTTGTTTTGTT
1 TTTTTTGTTTT-TT
23774253 TTTTTT
1 TTTTTT
23774259 AGGCATAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.27
13 19 0.51
14 8 0.22
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:23774225 original size:30 final size:30
Alignment explanation
Indices: 23774198--23774257 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
23774188 TGATTTTTCC
23774198 TTCT-TTTTTCTTTTTCTT-TTTTGTTTTT
1 TTCTGTTTTTCTTTTTCTTGTTTTGTTTTT
* * *
23774226 TTTTGTTTTTGTTTTTTTTGTTTTGTTTTT
1 TTCTGTTTTTCTTTTTCTTGTTTTGTTTTT
23774256 TT
1 TT
23774258 TAGGCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 12 0.44
30 12 0.44
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (30 bp):
TTCTGTTTTTCTTTTTCTTGTTTTGTTTTT
Found at i:23774227 original size:16 final size:15
Alignment explanation
Indices: 23774208--23774258 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
23774198 TTCTTTTTTC
*
23774208 TTTTTCTTTTTTGTT
1 TTTTTTTTTTTTGTT
23774223 TTTTTTTGTTTTTG-T
1 TTTTTTT-TTTTTGTT
*
23774238 TTTTTTTGTTTTGTT
1 TTTTTTTTTTTTGTT
23774253 TTTTTT
1 TTTTTT
23774259 AGGCATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 5 0.16
15 21 0.66
16 6 0.19
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTGTT
Found at i:23774258 original size:30 final size:29
Alignment explanation
Indices: 23774202--23774258 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
23774192 TTTTCCTTCT
23774202 TTTTTCTTTTTCTTTTTTGTTTTTTTTTG
1 TTTTTCTTTTTCTTTTTTGTTTTTTTTTG
* *
23774231 TTTTTGTTTTTTTTGTTTTGTTTTTTTT
1 TTTTTCTTTTTCTT-TTTTGTTTTTTTT
23774259 AGGCATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.88
Consensus pattern (29 bp):
TTTTTCTTTTTCTTTTTTGTTTTTTTTTG
Found at i:23781671 original size:17 final size:17
Alignment explanation
Indices: 23781651--23781975 Score: 190
Period size: 17 Copynumber: 18.5 Consensus size: 17
23781641 TTTTTAAATG
23781651 AAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
* *
23781668 AAATTTTAGAAACATG-
1 AAATTTTTGAAACACGA
** *
23781684 ATTTTTTTTAAACACGA
1 AAATTTTTGAAACACGA
*
23781701 CAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
* * *
23781718 GAATTTTTTCAAAACACAA
1 -AAATTTTT-GAAACACGA
*
23781737 AAATTTTTTAAAACACGA
1 AAA-TTTTTGAAACACGA
* *
23781755 AAATTTGTGAAACACTA
1 AAATTTTTGAAACACGA
* * ** * *
23781772 GAGTCGTTGAAAACATGG
1 AAATTTTTG-AAACACGA
* *
23781790 AAATTTGTGAAACACAA
1 AAATTTTTGAAACACGA
*
23781807 AAATTTTTTGAAACACGG
1 AAA-TTTTTGAAACACGA
*
23781825 AAATTTTTAGAAAACACAA
1 AAATTTTT-G-AAACACGA
* *
23781844 AAATTTTTGGATCACCG-
1 AAATTTTTGAAACA-CGA
*
23781861 GAATTTTTGAAAACACGA
1 AAATTTTTG-AAACACGA
*
23781879 AAATTTTCT-AAACACTA
1 AAATTTT-TGAAACACGA
*
23781896 GAATTTTTGAAAACACGA
1 AAATTTTTG-AAACACGA
**
23781914 GGATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
** *
23781931 ATTTTTTTTTGAAAATACGA
1 A--AATTTTTG-AAACACGA
23781951 AAATTTTTGAAAACAC-A
1 AAATTTTTG-AAACACGA
*
23781968 GAATTTTT
1 AAATTTTT
23781976 TTTGAAAACA
Statistics
Matches: 231, Mismatches: 60, Indels: 34
0.71 0.18 0.10
Matches are distributed among these distances:
16 12 0.05
17 97 0.42
18 81 0.35
19 33 0.14
20 8 0.03
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
AAATTTTTGAAACACGA
Found at i:23781708 original size:19 final size:19
Alignment explanation
Indices: 23781684--23781760 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 19
23781674 TAGAAACATG
* *
23781684 ATTTTTTTTAAACACGACA
1 ATTTTTTTAAAACACGAAA
* *
23781703 A--TTTTTGAAACACGAGA
1 ATTTTTTTAAAACACGAAA
*
23781720 ATTTTTTCAAAACAC-AAA
1 ATTTTTTTAAAACACGAAA
*
23781738 AATTTTTTAAAACACGAAA
1 ATTTTTTTAAAACACGAAA
23781757 ATTT
1 ATTT
23781761 GTGAAACACT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
17 15 0.32
18 15 0.32
19 17 0.36
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.36
Consensus pattern (19 bp):
ATTTTTTTAAAACACGAAA
Found at i:23781938 original size:35 final size:36
Alignment explanation
Indices: 23781654--23781999 Score: 195
Period size: 35 Copynumber: 9.8 Consensus size: 36
23781644 TTAAATGAAA
* *
23781654 TTTTTG-AAACACGAAAATTTTAGAAACA-TG-ATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAATT
* *
23781687 TTTTT-TAAACACGACAATTTTTGAAACACGAGAA-T
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-AGAATT
* * * **
23781722 TTTTTCAAAACACAAAAATTTTTTAAA-ACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACA-GAATT
* * * * ** *
23781758 TTTGTG-AAACACTAGAGTCGTTGAAA-ACATGGAA-A
1 TTTTTGAAAACACGAAAATTTTTGAAACACA--GAATT
* * * *
23781793 TTTGTG-AAACACAAAAATTTTTTGAAACACGGAAAT
1 TTTTTGAAAACACGAAAA-TTTTTGAAACACAGAATT
* * * * *
23781829 TTTTAGAAAACACAAAAATTTTTGGATCACCGGAA--
1 TTTTTGAAAACACGAAAATTTTTGAAACA-CAGAATT
23781864 TTTTTGAAAACACGAAAATTTTCT-AAACACTAGAA--
1 TTTTTGAAAACACGAAAATTTT-TGAAACAC-AGAATT
**
23781899 TTTTTGAAAACACGAGGATTTTTGAAACAC-GAATTTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAA--TT
*
23781936 TTTTTGAAAATACGAAAATTTTTGAAAACACAGAATTT
1 TTTTTGAAAACACGAAAATTTTTG-AAACACAGAA-TT
* *
23781974 TTTTTGAAAACATGAGAA-TTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
23782000 GACGAAATCT
Statistics
Matches: 250, Mismatches: 41, Indels: 41
0.75 0.12 0.12
Matches are distributed among these distances:
33 28 0.11
34 3 0.01
35 99 0.40
36 49 0.20
37 44 0.18
38 24 0.10
39 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACAGAATT
Found at i:23781950 original size:20 final size:19
Alignment explanation
Indices: 23781899--23781985 Score: 81
Period size: 20 Copynumber: 4.6 Consensus size: 19
23781889 AACACTAGAA
***
23781899 TTTTTGAAAACACG-AGGA
1 TTTTTGAAAACACGAATTT
23781917 TTTTTG-AAACACGAATTTT
1 TTTTTGAAAACACGAA-TTT
* **
23781936 TTTTTGAAAATACGAA-AA
1 TTTTTGAAAACACGAATTT
23781954 TTTTTGAAAACACAGAATTT
1 TTTTTGAAAACAC-GAATTT
23781974 TTTTTGAAAACA
1 TTTTTGAAAACA
23781986 TGAGAATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
17 7 0.13
18 19 0.35
19 9 0.16
20 20 0.36
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTTTGAAAACACGAATTT
Found at i:23781995 original size:18 final size:18
Alignment explanation
Indices: 23781693--23781999 Score: 165
Period size: 18 Copynumber: 17.1 Consensus size: 18
23781683 GATTTTTTTT
*
23781693 AAACACGACAATTTTTG-
1 AAACACGAGAATTTTTGA
*
23781710 AAACACGAGAATTTTTTCA
1 AAACACGAGAA-TTTTTGA
* * *
23781729 AAACACAAAAATTTTTTA
1 AAACACGAGAATTTTTGA
* *
23781747 AAACACGAAAATTTGTG-
1 AAACACGAGAATTTTTGA
* * **
23781764 AAACACTAGAGTCGTTGA
1 AAACACGAGAATTTTTGA
* *
23781782 AAACATG-GAAATTTGTG-
1 AAACACGAG-AATTTTTGA
* *
23781799 AAACACAAAAATTTTTTG-
1 AAACACGAGAA-TTTTTGA
23781817 AAACACG-GAAATTTTTAGA
1 AAACACGAG-AATTTTT-GA
* *
23781836 AAACACAAAAATTTTTG-
1 AAACACGAGAATTTTTGA
* *
23781853 GATCACCG-GAATTTTTGA
1 AAACA-CGAGAATTTTTGA
*
23781871 AAACACGAAAATTTTCT--
1 AAACACGAGAATTTT-TGA
*
23781888 AAACACTAGAATTTTTGA
1 AAACACGAGAATTTTTGA
*
23781906 AAACACGAGGATTTTTG-
1 AAACACGAGAATTTTTGA
*
23781923 AAACACGA-ATTTTTTTTTGA
1 AAACACGAGA---ATTTTTGA
* *
23781943 AAATACGAAAATTTTTGA
1 AAACACGAGAATTTTTGA
23781961 AAACAC-AGAATTTTTTTTGA
1 AAACACGAGAA---TTTTTGA
*
23781981 AAACATGAGAA-TTTTGA
1 AAACACGAGAATTTTTGA
23781998 AA
1 AA
23782000 GACGAAATCT
Statistics
Matches: 219, Mismatches: 46, Indels: 50
0.70 0.15 0.16
Matches are distributed among these distances:
16 1 0.00
17 79 0.36
18 86 0.39
19 29 0.13
20 19 0.09
21 5 0.02
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (18 bp):
AAACACGAGAATTTTTGA
Found at i:23781995 original size:20 final size:20
Alignment explanation
Indices: 23781917--23781995 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
23781907 AACACGAGGA
23781917 TTTTTG-AAACAC-GAATTTT
1 TTTTTGAAAACACAGAA-TTT
* **
23781936 TTTTTGAAAATAC-GAA-AA
1 TTTTTGAAAACACAGAATTT
23781954 TTTTTGAAAACACAGAATTT
1 TTTTTGAAAACACAGAATTT
*
23781974 TTTTTGAAAACATGAGAATTT
1 TTTTTGAAAACA-CAGAATTT
23781995 T
1 T
23781996 GAAAGACGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 12 0.24
19 9 0.18
20 20 0.41
21 8 0.16
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTTTGAAAACACAGAATTT
Found at i:23781996 original size:37 final size:37
Alignment explanation
Indices: 23781864--23781999 Score: 138
Period size: 37 Copynumber: 3.7 Consensus size: 37
23781854 ATCACCGGAA
**
23781864 TTTTTGAAAACACGAAAATTTTCTAAACACTAGAA---
1 TTTTTGAAAACACGAAAATTTTGAAAACAC-AGAATTT
* *
23781899 TTTTTGAAAACACGAGGATTTTTG-AAACAC-GAATTTT
1 TTTTTGAAAACACGA-AAATTTTGAAAACACAGAA-TTT
*
23781936 TTTTTGAAAATACGAAAATTTTTGAAAACACAGAATTT
1 TTTTTGAAAACACGAAAA-TTTTGAAAACACAGAATTT
* *
23781974 TTTTTGAAAACATGAGAATTTTGAAA
1 TTTTTGAAAACACGAAAATTTTGAAA
23782000 GACGAAATCT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
33 3 0.04
35 21 0.25
36 6 0.07
37 27 0.32
38 24 0.29
39 3 0.04
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (37 bp):
TTTTTGAAAACACGAAAATTTTGAAAACACAGAATTT
Found at i:23782013 original size:37 final size:35
Alignment explanation
Indices: 23781899--23782014 Score: 115
Period size: 37 Copynumber: 3.1 Consensus size: 35
23781889 AACACTAGAA
* *
23781899 TTTTTGAAAACACGAGGATTTTTGAAACACGAATTTT
1 TTTTTGAAAACACGA-GAATTTTGAAA-ACGAAATTT
* * *
23781936 TTTTTGAAAATACGAAAATTTTTGAAAACACAGAATTT
1 TTTTTGAAAACACGAGAA-TTTTGAAAAC-GA-AATTT
* *
23781974 TTTTTGAAAACATGAGAATTTTGAAAGACGAAATCT
1 TTTTTGAAAACACGAGAATTTTGAAA-ACGAAATTT
23782010 TTTTT
1 TTTTT
23782015 ATTTTTATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
36 12 0.18
37 32 0.49
38 21 0.32
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (35 bp):
TTTTTGAAAACACGAGAATTTTGAAAACGAAATTT
Found at i:23782212 original size:20 final size:18
Alignment explanation
Indices: 23782187--23782271 Score: 73
Period size: 18 Copynumber: 4.4 Consensus size: 18
23782177 CGTTGCCTTA
23782187 TTTTTGAAAACACGACTATT
1 TTTTTGAAAACACGA--ATT
23782207 TTTTTG-AAACACGAGAAAATT
1 TTTTTGAAAACAC--G--AATT
* **
23782228 TTTTTGAAGACACGAAGA
1 TTTTTGAAAACACGAATT
*
23782246 TTTTGGAAAACACGAATT
1 TTTTTGAAAACACGAATT
23782264 TTTTTGAA
1 TTTTTGAA
23782272 TATTTTCGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
18 23 0.44
19 6 0.12
20 7 0.13
21 10 0.19
22 5 0.10
23 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
TTTTTGAAAACACGAATT
Found at i:23782478 original size:17 final size:16
Alignment explanation
Indices: 23782424--23782479 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
23782414 ATTGGATTAA
*
23782424 ATTAAAA-ATATAAAT
1 ATTAAAATATAAAAAT
*
23782439 ACTAAAATATAAAAAT
1 ATTAAAATATAAAAAT
* *
23782455 GTATAAAATACTAATAAT
1 AT-TAAAATA-TAAAAAT
23782473 ATTAAAA
1 ATTAAAA
23782480 GGAAATAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.19
16 7 0.22
17 12 0.38
18 7 0.22
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (16 bp):
ATTAAAATATAAAAAT
Found at i:23782686 original size:17 final size:18
Alignment explanation
Indices: 23782664--23782697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23782654 CGAGAAAAAA
*
23782664 ATTTT-GAAGACACGAAG
1 ATTTTGGAAAACACGAAG
23782681 ATTTTGGAAAACACGAA
1 ATTTTGGAAAACACGAA
23782698 TTTTTTTGAA
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:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (18 bp):
ATTTTGGAAAACACGAAG
Found at i:23782948 original size:11 final size:11
Alignment explanation
Indices: 23782932--23783001 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 11
23782922 CAAATTAAAC
23782932 CTTTTTTTTCT
1 CTTTTTTTTCT
23782943 CTTTTTTCTT-T
1 CTTTTTT-TTCT
*
23782954 TTTCCTTTTTTCT
1 CTT--TTTTTTCT
*
23782967 TTCTTTTTTTCT
1 CT-TTTTTTTCT
23782979 CTTTTTTTTCT
1 CTTTTTTTTCT
**
23782990 CACTTTTTTCT
1 CTTTTTTTTCT
23783001 C
1 C
23783002 CTCTCTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
11 29 0.58
12 13 0.26
13 7 0.14
14 1 0.02
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:23782952 original size:7 final size:7
Alignment explanation
Indices: 23782936--23782985 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
23782926 TTAAACCTTT
23782936 TTTTTCTC
1 TTTTT-TC
23782944 TTTTTTC
1 TTTTTTC
23782951 TTTTTTCC
1 TTTTTT-C
23782959 TTTTTTC
1 TTTTTTC
23782966 TTTCTTT-
1 TTT-TTTC
*
23782973 TTTTCTC
1 TTTTTTC
23782980 TTTTTT
1 TTTTTT
23782986 TTCTCACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 2 0.05
7 20 0.54
8 15 0.41
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:23782955 original size:8 final size:8
Alignment explanation
Indices: 23782934--23782985 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 8
23782924 AATTAAACCT
23782934 TTTTTTTC
1 TTTTTTTC
23782942 TCTTTTTTC
1 T-TTTTTTC
*
23782951 TTTTTTCCTT
1 TTTTTT--TC
23782961 TTTTCTTTC
1 TTTT-TTTC
23782970 TTTTTTTC
1 TTTTTTTC
23782978 TCTTTTTT
1 T-TTTTTT
23782986 TTCTCACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 11 0.30
9 19 0.51
10 5 0.14
11 2 0.05
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:23782969 original size:19 final size:19
Alignment explanation
Indices: 23782944--23782989 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
23782934 TTTTTTTCTC
23782944 TTTTTTCTTTTTTCCT-TT
1 TTTTTTCTTTTTTCCTCTT
*
23782962 TTTCTTTCTTTTTTTCTCTT
1 TTT-TTTCTTTTTTCCTCTT
23782982 TTTTTTCT
1 TTTTTTCT
23782990 CACTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTCTTTTTTCCTCTT
Found at i:23782996 original size:22 final size:21
Alignment explanation
Indices: 23782950--23783001 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
23782940 TCTCTTTTTT
23782950 CTTTTTTC-CTTTTTTCTTTC
1 CTTTTTTCTCTTTTTTCTTTC
*
23782970 TTTTTTTCTCTTTTTT-TTCTC
1 CTTTTTTCTCTTTTTTCTT-TC
23782991 ACTTTTTTCTC
1 -CTTTTTTCTC
23783002 CTCTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.33
21 9 0.33
22 9 0.33
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTTTTTCTCTTTTTTCTTTC
Found at i:23782996 original size:34 final size:35
Alignment explanation
Indices: 23782934--23783000 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
23782924 AATTAAACCT
*
23782934 TTTTTTTCTCTTTTTTCTTTTTTCCTTTTTTCTTTC
1 TTTTTTTCTC-TTTTTCTTTTCTCCTTTTTTCTTTC
23782970 TTTTTTTCTC-TTTT-TTTTCTCACTTTTTTCT
1 TTTTTTTCTCTTTTTCTTTTCTC-CTTTTTTCT
23783001 CCTCTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.21
34 13 0.45
36 10 0.34
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (35 bp):
TTTTTTTCTCTTTTTCTTTTCTCCTTTTTTCTTTC
Found at i:23783159 original size:16 final size:17
Alignment explanation
Indices: 23783134--23783187 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
23783124 AAATGGCCTG
*
23783134 TTGCTTTTTTTTCTGCT
1 TTGCTTTTTTTTCGGCT
*
23783151 TTG-TTTTTTTTGGGCT
1 TTGCTTTTTTTTCGGCT
*
23783167 TTGCCTTTTTTTTCGGGT
1 TTG-CTTTTTTTTCGGCT
23783185 TTG
1 TTG
23783188 GAGCTGCTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 3 0.10
18 14 0.45
ACGTcount: A:0.00, C:0.13, G:0.20, T:0.67
Consensus pattern (17 bp):
TTGCTTTTTTTTCGGCT
Found at i:23783254 original size:1 final size:1
Alignment explanation
Indices: 23783248--23783313 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
23783238 ACTGAATTAA
* * * * * * * * *
23783248 TTTTTTTATTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTTCTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23783313 T
1 T
23783314 CTTCTTCCTT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:23783266 original size:7 final size:7
Alignment explanation
Indices: 23783249--23783302 Score: 101
Period size: 7 Copynumber: 7.9 Consensus size: 7
23783239 CTGAATTAAT
23783249 TTTTTTA
1 TTTTTTA
23783256 -TTTTTA
1 TTTTTTA
23783262 TTTTTTA
1 TTTTTTA
23783269 TTTTTTA
1 TTTTTTA
23783276 TTTTTTA
1 TTTTTTA
23783283 TTTTTTA
1 TTTTTTA
23783290 TTTTTTA
1 TTTTTTA
23783297 TTTTTT
1 TTTTTT
23783303 TCTTTCTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:23783310 original size:4 final size:4
Alignment explanation
Indices: 23783301--23783396 Score: 101
Period size: 4 Copynumber: 24.0 Consensus size: 4
23783291 TTTTTATTTT
* *
23783301 TTTC TTTC TTTT TCTTC -TTC CTTC -TTC TTTC -TTC TTTC TTTC TTTC
1 TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
23783347 TTTC TTTC TTTC TTTC TTT- TTCTC TTTTC TTTC TCTTT TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC TTTC TTTC TTTC
23783397 CCGATCAACC
Statistics
Matches: 80, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
3 11 0.14
4 60 0.75
5 7 0.09
6 2 0.03
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:23783390 original size:7 final size:7
Alignment explanation
Indices: 23783256--23783396 Score: 90
Period size: 7 Copynumber: 19.9 Consensus size: 7
23783246 AATTTTTTTA
*
23783256 TTTTTAT
1 TTTTTCT
*
23783263 TTTTTAT
1 TTTTTCT
*
23783270 TTTTTAT
1 TTTTTCT
*
23783277 TTTTTAT
1 TTTTTCT
*
23783284 TTTTTAT
1 TTTTTCT
*
23783291 TTTTTATT
1 TTTTT-CT
23783299 TTTTTCT
1 TTTTTCT
*
23783306 TTCTT-T
1 TTTTTCT
*
23783312 TTCTTCT
1 TTTTTCT
**
23783319 TCCTTCT
1 TTTTTCT
*
23783326 TCTTTCT
1 TTTTTCT
*
23783333 TCTTTCT
1 TTTTTCT
23783340 TTCTTTCT
1 TT-TTTCT
23783348 TTCTTTCT
1 TT-TTTCT
23783356 TTCTTTC-
1 TT-TTTCT
23783363 TTTTTCT
1 TTTTTCT
*
23783370 CTTTTC-
1 TTTTTCT
*
23783376 TTTCTCT
1 TTTTTCT
23783383 TTTTTCT
1 TTTTTCT
23783390 TTCTTTC
1 TT-TTTC
23783397 CCGATCAACC
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
6 14 0.12
7 74 0.63
8 30 0.25
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCT
Found at i:23783391 original size:34 final size:33
Alignment explanation
Indices: 23783302--23783396 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 33
23783292 TTTTATTTTT
**
23783302 TTCTTTCTTTTTC-TTC-TTCCTTC-TTCTTTC
1 TTCTTTCTTTTTCTTTCTTTTTTTCTTTCTTTC
*
23783332 TTCTTTC--TTTCTTTCTTTCTTTCTTTCTTTC
1 TTCTTTCTTTTTCTTTCTTTTTTTCTTTCTTTC
23783363 TT-TTTCTCTTTTCTTTCTCTTTTTTCTTTCTTTC
1 TTCTTTCT-TTTTCTTTCT-TTTTTTCTTTCTTTC
23783397 CCGATCAACC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.07
29 3 0.05
30 17 0.30
31 9 0.16
33 9 0.16
34 14 0.25
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (33 bp):
TTCTTTCTTTTTCTTTCTTTTTTTCTTTCTTTC
Found at i:23783535 original size:8 final size:9
Alignment explanation
Indices: 23783498--23783556 Score: 50
Period size: 8 Copynumber: 6.3 Consensus size: 9
23783488 TTCCCCCATC
23783498 TTTCTTCTT
1 TTTCTTCTT
*
23783507 TGCTCTT-TT
1 T-TTCTTCTT
23783516 TTTCTTCTT
1 TTTCTTCTT
23783525 TTT-TTCTT
1 TTTCTTCTT
23783533 TTTGCTTGCTT
1 TTT-CTT-CTT
*
23783544 GTTTTTTCTT
1 -TTTCTTCTT
23783554 TTT
1 TTT
23783557 TCTTGCCTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
8 12 0.29
9 12 0.29
10 9 0.22
11 5 0.12
12 3 0.07
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:23783810 original size:31 final size:29
Alignment explanation
Indices: 23783741--23783814 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
23783731 GGCTCAGGTT
* *
23783741 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* * *
23783770 ACGTTTTAGTCAGTTATGTTATCATATTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
23783801 ACATTTTAGTCACT
1 ACATTTTAGTCACT
23783815 GAGCCATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 18 0.50
30 2 0.06
31 16 0.44
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:23784404 original size:29 final size:30
Alignment explanation
Indices: 23784365--23784433 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
23784355 ACGATAACGC
* *
23784365 AAGTGACTAAAACGTAACAT-TTCAAACAT
1 AAGTGACTAAAACGTAACATAGTCAAACAA
*
23784394 AAGTGACTAAAATGTAACATGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT-AGTCAAACAA
23784425 AAGTGACTA
1 AAGTGACTA
23784434 TTTTGGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (30 bp):
AAGTGACTAAAACGTAACATAGTCAAACAA
Found at i:23784693 original size:29 final size:29
Alignment explanation
Indices: 23784652--23784755 Score: 120
Period size: 28 Copynumber: 3.6 Consensus size: 29
23784642 AAAACTTCGA
* *
23784652 GGGTCAAAGTGTAATTTTGGAAAATTTAG
1 GGGTCAAAATGTAATTTTAGAAAATTTAG
* ** *
23784681 GGGTCAAAATGTAATTTCA-AAAAAATAA
1 GGGTCAAAATGTAATTTTAGAAAATTTAG
*
23784709 GGGTCAAAATATAATTTTAAGAAAATTTAG
1 GGGTCAAAATGTAATTTT-AGAAAATTTAG
*
23784739 GGGTTAAAATGTAATTT
1 GGGTCAAAATGTAATTT
23784756 CGTAAAAAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 22 0.37
29 17 0.28
30 21 0.35
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTAGAAAATTTAG
Found at i:23784713 original size:28 final size:28
Alignment explanation
Indices: 23784681--23784766 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 28
23784671 GAAAATTTAG
23784681 GGGTCAAAATGTAATTTCAAAAAAATAA
1 GGGTCAAAATGTAATTTCAAAAAAATAA
* * * *
23784709 GGGTCAAAATATAATTTTAAGAAAATTTAG
1 GGGTCAAAATGTAATTTCAA-AAAA-ATAA
* *
23784739 GGGTTAAAATGTAATTTCGTAAAAAATA
1 GGGTCAAAATGTAATTTC-AAAAAAATA
23784767 CGAGATTTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 18 0.39
29 6 0.13
30 21 0.46
31 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (28 bp):
GGGTCAAAATGTAATTTCAAAAAAATAA
Found at i:23784750 original size:58 final size:58
Alignment explanation
Indices: 23784651--23784766 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
23784641 CAAAACTTCG
* * *
23784651 AGGGTCAAAGTGTAATTTTGGAAAATTTAGGGGTCAAAATGTAATTTC-AAAAAAATA
1 AGGGTCAAAATATAATTTTAGAAAATTTAGGGGTCAAAATGTAATTTCGAAAAAAATA
* *
23784708 AGGGTCAAAATATAATTTTAAGAAAATTTAGGGGTTAAAATGTAATTTCGTAAAAAATA
1 AGGGTCAAAATATAATTTT-AGAAAATTTAGGGGTCAAAATGTAATTTCGAAAAAAATA
23784767 CGAGATTTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 17 0.33
58 27 0.52
59 8 0.15
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (58 bp):
AGGGTCAAAATATAATTTTAGAAAATTTAGGGGTCAAAATGTAATTTCGAAAAAAATA
Found at i:23800735 original size:20 final size:21
Alignment explanation
Indices: 23800710--23800769 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
23800700 TTGTACGGGA
23800710 TTGCAC-TTTAGTGCCTCTGT
1 TTGCACATTTAGTGCCTCTGT
* *
23800730 TTGCACTTTTA-TGCCTCTGA
1 TTGCACATTTAGTGCCTCTGT
*
23800750 TTACACATTT-GTGCCTCTGT
1 TTGCACATTTAGTGCCTCTGT
23800770 CTGTACTTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 30 0.88
21 4 0.12
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (21 bp):
TTGCACATTTAGTGCCTCTGT
Found at i:23803835 original size:14 final size:14
Alignment explanation
Indices: 23803812--23803846 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23803802 TAGTAAGTTG
*
23803812 GAGTGGAGGAGAGA
1 GAGTGTAGGAGAGA
23803826 GAGTGTAGGAGAGA
1 GAGTGTAGGAGAGA
*
23803840 GAATGTA
1 GAGTGTA
23803847 AGTTAGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.49, T:0.14
Consensus pattern (14 bp):
GAGTGTAGGAGAGA
Found at i:23813535 original size:2 final size:2
Alignment explanation
Indices: 23813528--23813567 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
23813518 GACATGTGCG
23813528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23813568 TCACTAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23813846 original size:23 final size:22
Alignment explanation
Indices: 23813819--23813861 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23813809 ATTAAATTTT
23813819 TAAGATTACCAAATCATATCTTC
1 TAAGATT-CCAAATCATATCTTC
* *
23813842 TAAGATTGCATATCATATCT
1 TAAGATTCCAAATCATATCT
23813862 AAGATTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTCCAAATCATATCTTC
Found at i:23816344 original size:25 final size:24
Alignment explanation
Indices: 23816287--23816344 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
23816277 ATCCCTTCAC
* *
23816287 TTCCTCTTCTCTTCCTCTTTACAT
1 TTCCTCTTCTCTCCCACTTTACAT
23816311 TT-CTGCTTCTACTCCCACTTCT-CAT
1 TTCCT-CTTCT-CTCCCACTT-TACAT
23816336 TTCCTCTTC
1 TTCCTCTTC
23816345 CCCTGTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 16 0.57
26 3 0.11
ACGTcount: A:0.09, C:0.40, G:0.02, T:0.50
Consensus pattern (24 bp):
TTCCTCTTCTCTCCCACTTTACAT
Found at i:23818878 original size:23 final size:23
Alignment explanation
Indices: 23818838--23818883 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23818828 TTTAGATTAT
** *
23818838 TTATTTTAATTTTTAAATTTTAA
1 TTATTTTAATTTAAAAATGTTAA
*
23818861 TTATTTTGATTTAAAAATGTTAA
1 TTATTTTAATTTAAAAATGTTAA
23818884 AAATTCCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TTATTTTAATTTAAAAATGTTAA
Found at i:23837667 original size:45 final size:45
Alignment explanation
Indices: 23837603--23837689 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
23837593 CAGATACTCG
* *
23837603 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
*
23837648 GTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
23837690 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:23837811 original size:51 final size:50
Alignment explanation
Indices: 23837691--23837885 Score: 144
Period size: 51 Copynumber: 3.9 Consensus size: 50
23837681 TAATGATGTT
* * * * *
23837691 CGGTTCACATAGTAGCTTGCACATAGTACTATCA-ATGTGACCATTACCA-TC
1 CGGTACACATAATAGCCTGCACATAGTACTA-CACACGTGACCA--AACATTC
* * * * * *
23837742 CGATACACGTAGTGGCCTGCATATAGTACTACACACGTGATCGAAAC-TATC
1 CGGTACACATAATAGCCTGCACATAGTACTACACACGTGA-CCAAACAT-TC
* * * * * * *
23837793 CGGTACGCATAATAGCCTGTACATAGTACTACAAATGCGACCTATCATTC
1 CGGTACACATAATAGCCTGCACATAGTACTACACACGTGACCAAACATTC
* *
23837843 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGGTACACATAATAGCCTGCACATAGTACTACACACGTGACCA
23837886 TCACTTTCAC
Statistics
Matches: 109, Mismatches: 30, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
50 44 0.40
51 63 0.58
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
CGGTACACATAATAGCCTGCACATAGTACTACACACGTGACCAAACATTC
Found at i:23838041 original size:23 final size:22
Alignment explanation
Indices: 23837991--23838034 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23837981 TCATTCGGGA
*
23837991 ATTTTTCATTTTTTCTCACTTT
1 ATTTTTCACTTTTTCTCACTTT
23838013 ATTTTTCACTTTTTCTCACTTT
1 ATTTTTCACTTTTTCTCACTTT
23838035 TCTTTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTTCACTTTTTCTCACTTT
Found at i:23843655 original size:30 final size:30
Alignment explanation
Indices: 23843621--23843680 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23843611 TATTTTATTA
23843621 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
*
23843651 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
23843681 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:23852061 original size:17 final size:17
Alignment explanation
Indices: 23852039--23852072 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23852029 TCTCTTAAAT
23852039 AGATATAACTATTCAAG
1 AGATATAACTATTCAAG
23852056 AGATATAACTATTCAAG
1 AGATATAACTATTCAAG
23852073 TATTACTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
AGATATAACTATTCAAG
Found at i:23853444 original size:19 final size:19
Alignment explanation
Indices: 23853434--23853488 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
23853424 TTGAAATTTA
23853434 AAAATTATTTTAATTTTTG
1 AAAATTATTTTAATTTTTG
23853453 AAAATTATTTTAATTTTTG
1 AAAATTATTTTAATTTTTG
*
23853472 AAAATTATTTTGATTTT
1 AAAATTATTTTAATTTT
23853489 CTTTTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AAAATTATTTTAATTTTTG
Found at i:23853449 original size:37 final size:38
Alignment explanation
Indices: 23853408--23853488 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
23853398 CAAATTTTGG
23853408 AATTTTT-ATAAA-TATTTTGAA-ATTTAAAAATTATTTT
1 AATTTTTGA-AAATTATTTT-AATATTTAAAAATTATTTT
* *
23853445 AATTTTTGAAAATTATTTTAATTTTTGAAAATTATTTT
1 AATTTTTGAAAATTATTTTAATATTTAAAAATTATTTT
*
23853483 GATTTT
1 AATTTT
23853489 CTTTTTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 12 0.32
38 26 0.68
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (38 bp):
AATTTTTGAAAATTATTTTAATATTTAAAAATTATTTT
Found at i:23857577 original size:28 final size:31
Alignment explanation
Indices: 23857526--23857590 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 31
23857516 AAGAAGAAGA
23857526 GAGAAAAAAATAGTGAAGAGGT-GGAGAGTGG
1 GAGAAAAAAATAGTGAAGAGGTGGGA-AGTGG
* *
23857557 GTGAAAAGAAT-GTG-AGA-GTGGGAAGTGG
1 GAGAAAAAAATAGTGAAGAGGTGGGAAGTGG
23857585 GAGAAA
1 GAGAAA
23857591 TAATTTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 12 0.40
29 6 0.20
30 3 0.10
31 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (31 bp):
GAGAAAAAAATAGTGAAGAGGTGGGAAGTGG
Found at i:23863993 original size:316 final size:316
Alignment explanation
Indices: 23863420--23864052 Score: 1266
Period size: 316 Copynumber: 2.0 Consensus size: 316
23863410 CTTCAAAAGC
23863420 AAATACATACCAAATTAACCATTAACACATTTAAGAATTATCATTATAAAAGATCCTATACATGT
1 AAATACATACCAAATTAACCATTAACACATTTAAGAATTATCATTATAAAAGATCCTATACATGT
23863485 CATTTATAACCTTAGCCAAAATAACTCAAAATCTACCGAAATTGTTTGTTGGATAGTGTAATAGA
66 CATTTATAACCTTAGCCAAAATAACTCAAAATCTACCGAAATTGTTTGTTGGATAGTGTAATAGA
23863550 TCTTCGACAAGCTTCCAACTGATCGAGCTTTTGATAATCTACAAAACAAAGGAAAGTAACTACGT
131 TCTTCGACAAGCTTCCAACTGATCGAGCTTTTGATAATCTACAAAACAAAGGAAAGTAACTACGT
23863615 AAGCAACTAATGCTTAGTAAGCTCGTATCAACTCAAACATAACTTACCATTTCTTAAGCACATAT
196 AAGCAACTAATGCTTAGTAAGCTCGTATCAACTCAAACATAACTTACCATTTCTTAAGCACATAT
23863680 TATAAAATAAGCATAATATTATTACCAATTCCATAAGCTTAGTAAAATCCTATACA
261 TATAAAATAAGCATAATATTATTACCAATTCCATAAGCTTAGTAAAATCCTATACA
23863736 AAATACATACCAAATTAACCATTAACACATTTAAGAATTATCATTATAAAAGATCCTATACATGT
1 AAATACATACCAAATTAACCATTAACACATTTAAGAATTATCATTATAAAAGATCCTATACATGT
23863801 CATTTATAACCTTAGCCAAAATAACTCAAAATCTACCGAAATTGTTTGTTGGATAGTGTAATAGA
66 CATTTATAACCTTAGCCAAAATAACTCAAAATCTACCGAAATTGTTTGTTGGATAGTGTAATAGA
23863866 TCTTCGACAAGCTTCCAACTGATCGAGCTTTTGATAATCTACAAAACAAAGGAAAGTAACTACGT
131 TCTTCGACAAGCTTCCAACTGATCGAGCTTTTGATAATCTACAAAACAAAGGAAAGTAACTACGT
23863931 AAGCAACTAATGCTTAGTAAGCTCGTATCAACTCAAACATAACTTACCATTTCTTAAGCACATAT
196 AAGCAACTAATGCTTAGTAAGCTCGTATCAACTCAAACATAACTTACCATTTCTTAAGCACATAT
23863996 TATAAAATAAGCATAATATTATTACCAATTCCATAAGCTTAGTAAAATCCTATACA
261 TATAAAATAAGCATAATATTATTACCAATTCCATAAGCTTAGTAAAATCCTATACA
23864052 A
1 A
23864053 GCACCATCAA
Statistics
Matches: 317, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
316 317 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (316 bp):
AAATACATACCAAATTAACCATTAACACATTTAAGAATTATCATTATAAAAGATCCTATACATGT
CATTTATAACCTTAGCCAAAATAACTCAAAATCTACCGAAATTGTTTGTTGGATAGTGTAATAGA
TCTTCGACAAGCTTCCAACTGATCGAGCTTTTGATAATCTACAAAACAAAGGAAAGTAACTACGT
AAGCAACTAATGCTTAGTAAGCTCGTATCAACTCAAACATAACTTACCATTTCTTAAGCACATAT
TATAAAATAAGCATAATATTATTACCAATTCCATAAGCTTAGTAAAATCCTATACA
Found at i:23870285 original size:60 final size:60
Alignment explanation
Indices: 23870187--23870309 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 60
23870177 CTATTGAGTC
*
23870187 TTCCATTATACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
1 TTCCATTAAACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
*
23870247 TTCCATTAAACAAGAATCTATTATCAAGAGTTCTATACCATTGCCTTTGGTAGCTAGGCA
1 TTCCATTAAACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
23870307 TTC
1 TTC
23870310 TTTCCACTCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (60 bp):
TTCCATTAAACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
Found at i:23873191 original size:18 final size:18
Alignment explanation
Indices: 23873133--23873192 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
23873123 ACAAGTTATT
* *
23873133 AAAATTATTAAAATTTTA
1 AAAATTATAAAAATTTAA
** *
23873151 AAAATATATAATTATTTAT
1 AAAAT-TATAAAAATTTAA
*
23873170 AAAATTATAAAAATATAA
1 AAAATTATAAAAATTTAA
23873188 AAAAT
1 AAAAT
23873193 GATTTTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 19 0.59
19 13 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTATAAAAATTTAA
Found at i:23880560 original size:60 final size:60
Alignment explanation
Indices: 23880462--23880584 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 60
23880452 CTATTGAGTC
*
23880462 TTCCATTATACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
1 TTCCATTAAACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
*
23880522 TTCCATTAAACAAGAATCTATTATCAAGAGTTCTATACCATTGCCTTTGGTAGCTAGGCA
1 TTCCATTAAACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
23880582 TTC
1 TTC
23880585 TTTCCACTCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (60 bp):
TTCCATTAAACAAGAATCTATTATCAAGAGTTCCATACCATTGCCTTTGGTAGCTAGGCA
Found at i:23883466 original size:18 final size:18
Alignment explanation
Indices: 23883408--23883467 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
23883398 ACAAGTTATT
* *
23883408 AAAATTATTAAAATTTTA
1 AAAATTATAAAAATTTAA
** *
23883426 AAAATATATAATTATTTAT
1 AAAAT-TATAAAAATTTAA
*
23883445 AAAATTATAAAAATATAA
1 AAAATTATAAAAATTTAA
23883463 AAAAT
1 AAAAT
23883468 GATTTTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 19 0.59
19 13 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTATAAAAATTTAA
Found at i:23888990 original size:133 final size:133
Alignment explanation
Indices: 23888816--23889062 Score: 329
Period size: 133 Copynumber: 1.9 Consensus size: 133
23888806 AATTGGAATA
*
23888816 TAGCGGCATTTTCTGAGAAACGCCAGTAACAATAACGAATTTGAGGAAAAAATCT-GAGCAAAAC
1 TAGCGGCATTTTCAGAGAAACGCCAGTAACAATAACGAATTTGAGGAAAAAATCTGGA-CAAAAC
* * * *
23888880 AG-TACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGCATTTTAAAAAACGTCGGAAAAGAA
65 -GCTACCGTTTTATTGCTTCATTTTATTTCCTTAGTGGCGCATTGTAAAAAACGTCGGAAAAGAA
23888944 TGCAT
129 TGCAT
* * * * * * *
23888949 TAGCGGCGTTTTCAGGGAAACGCCGGTAA-AGATATCTAATTTGAGGAAAAATTTTGGACAAAAC
1 TAGCGGCATTTTCAGAGAAACGCCAGTAACA-ATAACGAATTTGAGGAAAAAATCTGGACAAAAC
*
23889013 GCTACTGTTTTATTGCTTCATTTTATTTCCTTAGTGGCGCATTGTAAAAA
65 GCTACCGTTTTATTGCTTCATTTTATTTCCTTAGTGGCGCATTGTAAAAA
23889063 GCGCCGCAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
132 2 0.02
133 94 0.96
134 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (133 bp):
TAGCGGCATTTTCAGAGAAACGCCAGTAACAATAACGAATTTGAGGAAAAAATCTGGACAAAACG
CTACCGTTTTATTGCTTCATTTTATTTCCTTAGTGGCGCATTGTAAAAAACGTCGGAAAAGAATG
CAT
Found at i:23895957 original size:21 final size:21
Alignment explanation
Indices: 23895927--23895973 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23895917 CTACAACTTA
* * *
23895927 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAAAGGCAGCAACGAGAG
*
23895948 AAGCAAAGGCTGCAACGAGAG
1 AAGCAAAGGCAGCAACGAGAG
23895969 AAGCA
1 AAGCA
23895974 GAGGTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.38, T:0.02
Consensus pattern (21 bp):
AAGCAAAGGCAGCAACGAGAG
Found at i:23896689 original size:41 final size:41
Alignment explanation
Indices: 23896593--23896708 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
23896583 GTTGTAAAAC
**
23896593 CGCCGCTAAAGAACATGACCCCTAGCGGCGTGTTTCTTGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGT-TTTCTTGAAG
* * * * * *
23896635 CGTCACTAAAGAACATGATCTTTAGCGTCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTGAAG
*
23896676 CGCCGCTAAAGAACAAGACCTTTAGCGGCGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
23896709 ATTTCTGTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
41 36 0.59
42 25 0.41
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTGAAG
Found at i:23899540 original size:221 final size:219
Alignment explanation
Indices: 23899161--23899591 Score: 693
Period size: 221 Copynumber: 2.0 Consensus size: 219
23899151 CACCAGTATG
* * *
23899161 GAAGACAAGATCTGCTACCTTTGATATATTTCACGCCGATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTACCTTTGATATACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
*
23899226 CTATCTACTTCGCCAATACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
66 CTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
* *
23899291 GGAAGACAAGATCTGCTATCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTATCT
131 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCT
*
23899356 TTTATCTACTTCACGCCAATACAT
196 TTGATCTACTTCACGCCAATACAT
* * *
23899380 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTACCTTTGATATACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
* * *
23899445 -TGATCTACTTCATGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 CT-ATCTACTTC--GCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
* *
23899509 ATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTACTT
128 ATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
23899574 TCTTTGATCTACTTCACG
193 TCTTTGATCTACTTCACG
23899592 ACAACCCAGG
Statistics
Matches: 194, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
218 1 0.01
219 68 0.35
221 125 0.64
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (219 bp):
GAAGACAAGATCTGCTACCTTTGATATACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
CTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATG
GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCT
TTGATCTACTTCACGCCAATACAT
Found at i:23899588 original size:44 final size:44
Alignment explanation
Indices: 23899161--23899591 Score: 508
Period size: 44 Copynumber: 9.8 Consensus size: 44
23899151 CACCAGTATG
* * * *
23899161 GAAGACAAGATCTGCTACCTTTGATATATTTCACGCCGATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* *
23899205 GAAGACAAGATCTGCTTTCTTCT-ATCTACTT--CGCCAATACAC
1 GAAGACAAGATCTGCTATCTT-TGATCTACTTCACGCCAATACAT
* * * * * * * ***
23899247 GAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACAT
* *
23899292 GAAGACAAGATCTGCTATCTTCGATCTACTTTACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
*
23899336 GAAGACAAGATCTGCTATCTTTTATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
*
23899380 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* *
23899424 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCTAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * * * ***
23899468 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAATACAT
*
23899513 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * *
23899557 GAAGACAAGATTTACTTTCTTTGATCTACTTCACG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACG
23899592 ACAACCCAGG
Statistics
Matches: 330, Mismatches: 51, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
42 36 0.11
44 224 0.68
45 70 0.21
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
Done.