Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 167 of 290
Found at i:57270800 original size:80 final size:79
Alignment explanation
Indices: 57270620--57270880 Score: 260
Period size: 80 Copynumber: 3.3 Consensus size: 79
57270610 TATTCGAATG
* * *
57270620 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGA-TCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACT-CGAAGG
* * *
57270684 CATTCGTGCGAGTTG-CT
64 CATTTGTGCAAG--GATT
* * * * * *
57270701 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCTGGGCTAAAACTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
*
57270766 TTTGTGCTAGCGATT
66 TTTGTGCAAG-GATT
* * * *
57270781 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
* *
57270845 CTTGTGCAAGTAGTT
66 TTTGTGCAAGGA-TT
*
57270860 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
57270881 ATTACTTGAG
Statistics
Matches: 150, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
78 15 0.10
79 17 0.11
80 86 0.57
81 32 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
TTTGTGCAAGGATT
Found at i:57274260 original size:96 final size:95
Alignment explanation
Indices: 57274092--57274282 Score: 337
Period size: 96 Copynumber: 2.0 Consensus size: 95
57274082 TTAAAAGTTT
* **
57274092 GGCCTCAGCCCTACTTACGGTTTCAGTATCAATTGGGCTTAGCCCACTATAACAGACAGTACCAG
1 GGCCCCAGCCCTACTTACAATTTCAGTATCAATTGGGCTTAGCCCACTATAACAGACAGTACCAG
57274157 ATGGGCTTTAACCCATTACAGAATAAGAAA
66 ATGGGCTTTAACCCATTACAGAATAAGAAA
*
57274187 GGCCCCAGCCCTACTTACAATTTCAGTATCAATTGGGCCTTAGCCCACTATAACAGACAGTATCA
1 GGCCCCAGCCCTACTTACAATTTCAGTATCAATTGGG-CTTAGCCCACTATAACAGACAGTACCA
57274252 GATGGGCTTTAACCCATTACAGAATAAGAAA
65 GATGGGCTTTAACCCATTACAGAATAAGAAA
57274283 CATTATCAGA
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 34 0.37
96 57 0.63
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (95 bp):
GGCCCCAGCCCTACTTACAATTTCAGTATCAATTGGGCTTAGCCCACTATAACAGACAGTACCAG
ATGGGCTTTAACCCATTACAGAATAAGAAA
Found at i:57274305 original size:6 final size:6
Alignment explanation
Indices: 57274287--57274406 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
57274277 AAGAAACATT
* * *
57274287 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA TTCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
57274336 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
57274387 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
57274407 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
5 6 0.07
6 66 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:57274338 original size:31 final size:31
Alignment explanation
Indices: 57274296--57274406 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
57274286 TATCAGAACT
* * * *
57274296 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
57274327 AGATTCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
57274358 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
57274389 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
57274407 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 62 0.85
32 11 0.15
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:57274362 original size:19 final size:19
Alignment explanation
Indices: 57274338--57274395 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
57274328 GATTCAGAAT
57274338 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
57274357 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
57274369 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
57274388 CAGAATCA
1 CAGAATCA
57274396 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:57274645 original size:27 final size:27
Alignment explanation
Indices: 57274541--57274645 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
57274531 CTGCTCAGTT
* * *
57274541 ATCAGATATTGTGACAGAGTCACTAG-
1 ATCAGATATTGTGGCAAAGCCACTAGA
*
57274567 ATACAGATATTGTGGCAAAGCCACCAGA
1 AT-CAGATATTGTGGCAAAGCCACTAGA
* *
57274595 A-CAAATATTTGTGGCATAGCCACTAGA
1 ATCAGATA-TTGTGGCAAAGCCACTAGA
*
57274622 ATCAGATAATGTGGCAAAGCCACT
1 ATCAGATATTGTGGCAAAGCCACT
57274646 TAATAGAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
ATCAGATATTGTGGCAAAGCCACTAGA
Found at i:57274850 original size:22 final size:22
Alignment explanation
Indices: 57274802--57274860 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57274792 GTAAATACGT
*
57274802 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
57274824 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
57274846 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
57274861 CGATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:57275237 original size:27 final size:27
Alignment explanation
Indices: 57275207--57275593 Score: 506
Period size: 27 Copynumber: 14.3 Consensus size: 27
57275197 GGGGCAAAAT
* *
57275207 GGTAATTTTACCCTA-AGAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
* * **
57275234 GGTAATTCTACCTTACAGGAGTAAATC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
57275261 AGTATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57275288 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57275315 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
57275342 GGTAATTCTACTTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57275369 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57275396 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57275423 AGTAATTATACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57275450 GGTAATTCTACCTTAAAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57275477 AGTAATTATACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57275504 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57275531 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57275558 GGTAATTCTACCCTACAGGGGGATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57275585 AGTAATTCT
1 GGTAATTCT
57275594 GCGAACCAGG
Statistics
Matches: 309, Mismatches: 50, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
27 307 0.99
28 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57275646 original size:27 final size:27
Alignment explanation
Indices: 57275580--57275661 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
57275570 CTACAGGGGG
* ** *
57275580 ATTTTAGTAATTCTGCGAACCAGGGGT
1 ATTTTAGTAATTTTGTAAACCAAGGGT
*
57275607 ATTTTGGTAATTTTGTAAACCAAGGGT
1 ATTTTAGTAATTTTGTAAACCAAGGGT
* *
57275634 ATTTTAGTAATTTTGTAAATCGAGGGT
1 ATTTTAGTAATTTTGTAAACCAAGGGT
57275661 A
1 A
57275662 AAACGATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
ATTTTAGTAATTTTGTAAACCAAGGGT
Found at i:57275861 original size:27 final size:27
Alignment explanation
Indices: 57275640--57275850 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
57275630 GGGTATTTTA
*
57275640 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
57275667 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
57275694 GTAGTTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
57275721 GTAATTCTATAAATCGATGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
57275748 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
57275775 GTAGTTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
57275802 GTAATTCTATAAATCGATGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
57275829 ATAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
57275851 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:57275874 original size:81 final size:81
Alignment explanation
Indices: 57275640--57275850 Score: 395
Period size: 81 Copynumber: 2.6 Consensus size: 81
57275630 GGGTATTTTA
* * *
57275640 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAGTTCTGTA
1 GTAATTCTATAAATCGATGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAGTTCTGTA
57275705 AATTGAGGGTAAAATG
66 AATTGAGGGTAAAATG
57275721 GTAATTCTATAAATCGATGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAGTTCTGTA
1 GTAATTCTATAAATCGATGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAGTTCTGTA
57275786 AATTGAGGGTAAAATG
66 AATTGAGGGTAAAATG
57275802 GTAATTCTATAAATCGATGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGATGGTAAAACGATAATTCTGTAAATCGAGGGTA
57275851 CTTTGGTAAT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 127 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGATGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAGTTCTGTA
AATTGAGGGTAAAATG
Found at i:57276479 original size:55 final size:55
Alignment explanation
Indices: 57276420--57276529 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
57276410 GCCATGGGAT
*
57276420 TCGAACCCATGCCTCCCCTTAAATGCTCCACCCGCTACTTGCCACTAAGCCACAA
1 TCGAACCCATGCCTCCCCTTAAATGCTCCACACGCTACTTGCCACTAAGCCACAA
*
57276475 TCGAACCCATGCCTCCCCTTAAATGCTCCATACGCTACTTGCCACTAAGCCACAA
1 TCGAACCCATGCCTCCCCTTAAATGCTCCACACGCTACTTGCCACTAAGCCACAA
57276530 GGCTTTTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.26, C:0.42, G:0.11, T:0.21
Consensus pattern (55 bp):
TCGAACCCATGCCTCCCCTTAAATGCTCCACACGCTACTTGCCACTAAGCCACAA
Found at i:57284848 original size:27 final size:27
Alignment explanation
Indices: 57284818--57284953 Score: 193
Period size: 27 Copynumber: 5.0 Consensus size: 27
57284808 AAAGTACTCC
57284818 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
57284845 CGATTTTTAAAATTACCGCTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57284872 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57284899 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57284926 CGATTTACAGAATAACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57284953 C
1 C
57284954 AGTTTATCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.38
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57284856 original size:54 final size:53
Alignment explanation
Indices: 57284787--57284953 Score: 178
Period size: 54 Copynumber: 3.1 Consensus size: 53
57284777 TACTGAAATG
* **
57284787 CCCTCGACTTGTAAAATTACGAAAGTACTCC-CGATTTACAGAATTACCGTTTTA
1 CCCTCGA-TTTTAAAATTACGAATTTAC-CCTCGATTTACAGAATTACCGTTTTA
* *
57284841 CCCTCGATTTTTAAAATTACCG-CTTTACCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGA-TTTTAAAATTA-CGAATTTACCCTCGATTTACAGAATTACCGTTTTA
* * * *
57284895 CCCTC-AGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATAACCGTTTTA
1 CCCTCGATTTTA-A-AATTACGAATTTACCCTCGATTTACAGAATTACCGTTTTA
57284949 CCCTC
1 CCCTC
57284954 AGTTTATCAT
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
52 4 0.04
53 5 0.05
54 86 0.89
55 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.35
Consensus pattern (53 bp):
CCCTCGATTTTAAAATTACGAATTTACCCTCGATTTACAGAATTACCGTTTTA
Found at i:57285123 original size:27 final size:28
Alignment explanation
Indices: 57285091--57285307 Score: 214
Period size: 27 Copynumber: 8.0 Consensus size: 28
57285081 AAGTACTCCC
*
57285091 GATTTACAGAATTACCGTTTTACCCTCA
1 GATTTATAGAATTACCGTTTTACCCTCA
* **
57285119 G-TTTACAGAATTACTATTTTACCCTC-
1 GATTTATAGAATTACCGTTTTACCCTCA
* * *
57285145 GATTTATAAAATTACCGTTTTACTCT-T
1 GATTTATAGAATTACCGTTTTACCCTCA
* *
57285172 GATTTATAGAATTATCGTTTAACCCTCA
1 GATTTATAGAATTACCGTTTTACCCTCA
* *
57285200 -ATTTGTAAAATTACCGTTTTACCCTC-
1 GATTTATAGAATTACCGTTTTACCCTCA
* *
57285226 GATTTATAGAATTACTGGTTTACCCTC-
1 GATTTATAGAATTACCGTTTTACCCTCA
* * * * *
57285253 GGTTTACAAAATTATCGTTTTACCCT-T
1 GATTTATAGAATTACCGTTTTACCCTCA
*
57285280 GATTTATAGAATTACTGTTTTACCCTCA
1 GATTTATAGAATTACCGTTTTACCCTCA
57285308 ATTGTGAAAT
Statistics
Matches: 151, Mismatches: 32, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (28 bp):
GATTTATAGAATTACCGTTTTACCCTCA
Found at i:57285183 original size:54 final size:54
Alignment explanation
Indices: 57285090--57285306 Score: 276
Period size: 54 Copynumber: 4.0 Consensus size: 54
57285080 AAAGTACTCC
* * * *
57285090 CGATTTACAGAATTACCGTTTTACCC-TCAGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTTGA-TTTATAGAATTACTGTTTTACCCT
* * *
57285144 CGATTTATAAAATTACCGTTTTACTCTTGATTTATAGAATTA-TCGTTTAACCCT
1 CGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACT-GTTTTACCCT
* ** * *
57285198 CAATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCT
* *
57285252 CGGTTTACAAAATTATCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCT
57285306 C
1 C
57285307 AATTGTGAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 136 0.97
55 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (54 bp):
CGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCT
Found at i:57285183 original size:81 final size:81
Alignment explanation
Indices: 57285090--57285306 Score: 265
Period size: 81 Copynumber: 2.7 Consensus size: 81
57285080 AAAGTACTCC
* * *
57285090 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAAA
1 CGATTTACAGAATTATCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTATAAA
* *
57285155 ATTACCGTTTTACTCT
66 ATTACCGGTTTACCCT
* * * * * * * *
57285171 TGATTTATAGAATTATCGTTTAACCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTATAGA
1 CGATTTACAGAATTATCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTATAAA
*
57285236 ATTACTGGTTTACCCT
66 ATTACCGGTTTACCCT
* * *
57285252 CGGTTTACAAAATTATCGTTTTACCCT-TGATTTATAGAATTACTGTTTTACCCTC
1 CGATTTACAGAATTATCGTTTTACCCTCAG-TTTATAGAATTACTGTTTTACCCTC
57285307 AATTGTGAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
81 111 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (81 bp):
CGATTTACAGAATTATCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTATAAA
ATTACCGGTTTACCCT
Found at i:57285185 original size:272 final size:272
Alignment explanation
Indices: 57284692--57285225 Score: 858
Period size: 272 Copynumber: 2.0 Consensus size: 272
57284682 AGGGCCACAC
57284692 GAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGTTTA
1 GAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGTTTA
57284757 GAATACTTTAGTTTACCAATTACTGAAATGCCCTCGACTTGTAAAATTACGAAAGTACTCCCGAT
66 GAATACTTTAGTTTACCAATTACTGAAATGCCCTCGACTTGTAAAATTACGAAAGTACTCCCGAT
* * *
57284822 TTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGCTTTACCCTCGATTTACAGAATTA
131 TTACAGAATTACCGTTTTACCCTCGATGTTTAAAATTACCACTTTACCCTCGATTTACAAAATTA
* * * *
57284887 CTGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATAACCGTTTTACCC
196 CCGTTTTACCCTCAGTTTACAGAATTACCATTTAACCCTCAATTTACAAAATAACCGTTTTACCC
57284952 TCAGTTTATCAT
261 TCAGTTTATCAT
57284964 GAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGTTTA
1 GAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGTTTA
57285029 GAATACTTTAGTTTACCAATTACTGAAATGCCCTCGACTTGTAAAATTACGAAAGTACTCCCGAT
66 GAATACTTTAGTTTACCAATTACTGAAATGCCCTCGACTTGTAAAATTACGAAAGTACTCCCGAT
* * *
57285094 TTACAGAATTACCGTTTTACCCTC-A-GTTTACAGAATTACTATTTTACCCTCGATTTATAAAAT
131 TTACAGAATTACCGTTTTACCCTCGATGTTTA-A-AATTACCACTTTACCCTCGATTTACAAAAT
* * * * * ** *
57285157 TACCGTTTTACTCT-TGATTTATAGAATTATCGTTTAACCCTCAATTTGTAAAATTACCGTTTTA
194 TACCGTTTTACCCTCAG-TTTACAGAATTACCATTTAACCCTCAATTTACAAAATAACCGTTTTA
57285221 CCCTC
258 CCCTC
57285226 GATTTATAGA
Statistics
Matches: 241, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
270 4 0.02
271 3 0.01
272 234 0.97
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (272 bp):
GAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGTTTA
GAATACTTTAGTTTACCAATTACTGAAATGCCCTCGACTTGTAAAATTACGAAAGTACTCCCGAT
TTACAGAATTACCGTTTTACCCTCGATGTTTAAAATTACCACTTTACCCTCGATTTACAAAATTA
CCGTTTTACCCTCAGTTTACAGAATTACCATTTAACCCTCAATTTACAAAATAACCGTTTTACCC
TCAGTTTATCAT
Found at i:57285345 original size:27 final size:27
Alignment explanation
Indices: 57285315--57285375 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
57285305 TCAATTGTGA
* *
57285315 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAG
*
57285342 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAG
57285369 AATTACC
1 AATTACC
57285376 GAGATACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTATAGGGTAG
Found at i:57285376 original size:27 final size:27
Alignment explanation
Indices: 57285323--57285383 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
57285313 GAAATTACTA
*
57285323 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCG
57285350 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCG
*
57285377 AGATACC
1 AAATACC
57285384 TTCAAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACCG
Found at i:57285431 original size:27 final size:27
Alignment explanation
Indices: 57285401--57285637 Score: 314
Period size: 27 Copynumber: 8.8 Consensus size: 27
57285391 ATCCCCCTGG
57285401 AGGGTAGAATTACCGAAATACCCCTAT
1 AGGGTAGAATTACCGAAATACCCCTAT
** *
57285428 AGGGTAGAATTACTAAAATACCCTTAT
1 AGGGTAGAATTACCGAAATACCCCTAT
*
57285455 AGGGTAG-ATTACCGAAATACCCCTGT
1 AGGGTAGAATTACCGAAATACCCCTAT
* * *
57285481 AGGGTAGAATTACCAAAATACTCCTGT
1 AGGGTAGAATTACCGAAATACCCCTAT
* * *
57285508 AGGGTAAAATTACTGAAATACCCATAT
1 AGGGTAGAATTACCGAAATACCCCTAT
* *
57285535 AGGGTAGAATTACCAAAATACCCCTGT
1 AGGGTAGAATTACCGAAATACCCCTAT
* * *
57285562 AGGGTAGAATTATCGCAATACCCCTGT
1 AGGGTAGAATTACCGAAATACCCCTAT
*
57285589 AGGGTAGAATTATCGAAATACCCCTAT
1 AGGGTAGAATTACCGAAATACCCCTAT
*
57285616 AGGGTAGAATTACCGAGATACC
1 AGGGTAGAATTACCGAAATACC
57285638 TTGTGGGGTA
Statistics
Matches: 182, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.12
27 160 0.88
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AGGGTAGAATTACCGAAATACCCCTAT
Found at i:57285449 original size:66 final size:66
Alignment explanation
Indices: 57285322--57285449 Score: 211
Period size: 66 Copynumber: 1.9 Consensus size: 66
57285312 TGAAATTACT
* * *
57285322 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAGATACCTTC
1 AAAATACCCCTGGAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCTTC
57285387 A
66 A
* *
57285388 AAAATCCCCCTGGAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATACC
1 AAAATACCCCTGGAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACC
57285450 CTTATAGGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (66 bp):
AAAATACCCCTGGAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCTTC
A
Found at i:57285582 original size:81 final size:81
Alignment explanation
Indices: 57285388--57285655 Score: 353
Period size: 80 Copynumber: 3.3 Consensus size: 81
57285378 GATACCTTCA
* * * * *
57285388 AAAATCCCCCTGGAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTT
1 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCAT
57285453 ATAGGGTAG-ATTACC
66 ATAGGGTAGAATTACC
* * * *
57285468 GAAATACCCCTGTAGGGTAGAATTACCAAAATACTCCTGTAGGGTAAAATTACTGAAATACCCAT
1 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCAT
57285533 ATAGGGTAGAATTACC
66 ATAGGGTAGAATTACC
* * *
57285549 AAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCC
1 AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCA
57285613 TATAGGGTAGAATTACC
65 TATAGGGTAGAATTACC
* * * * *
57285630 GAGATA-CCTTGTGGGGTAAAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
57285656 ATTTTGCCCC
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 82 0.50
81 82 0.50
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCAT
ATAGGGTAGAATTACC
Found at i:57286333 original size:27 final size:27
Alignment explanation
Indices: 57286303--57286404 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
57286293 ATTCTGTTAA
* * *
57286303 GTGGCTTTGCCACATTTTCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
57286330 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
57286357 GTTGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
57286384 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
57286405 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.78
28 6 0.09
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:57286575 original size:31 final size:31
Alignment explanation
Indices: 57286540--57286616 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
57286530 TTGCATTCAC
* *
57286540 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
57286571 ATTCTAATCCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
57286602 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
57286617 TTAGTTCTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:57286604 original size:6 final size:6
Alignment explanation
Indices: 57286540--57286616 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
57286530 TTGCATTCAC
* * * *
57286540 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATCCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
57286589 -TCACCTG ATTCTG ATTCTG ATTCTG ATT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATT
57286617 TTAGTTCTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 3 0.05
6 44 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:57288618 original size:183 final size:183
Alignment explanation
Indices: 57288310--57288675 Score: 723
Period size: 183 Copynumber: 2.0 Consensus size: 183
57288300 TTCAATCAGG
57288310 TGTGTATTTATCACTACTCTTGTTGTTGGATGGCTACTTTGGGCCGCGATGGGCTGAAAGGGGCT
1 TGTGTATTTATCACTACTCTTGTTGTTGGATGGCTACTTTGGGCCGCGATGGGCTGAAAGGGGCT
57288375 ATATGGGCCCAATGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGA
66 ATATGGGCCCAATGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGA
57288440 CTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCACA
131 CTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCACA
57288493 TGTGTATTTATCACTACTCTTGTTGTTGGATGGCTACTTTGGGCCGCGATGGGCTGAAAGGGGCT
1 TGTGTATTTATCACTACTCTTGTTGTTGGATGGCTACTTTGGGCCGCGATGGGCTGAAAGGGGCT
57288558 ATATGGGCCCAATGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGA
66 ATATGGGCCCAATGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGA
*
57288623 CTAGGCTAGGTGAATCGCATATCTGTGGTTAGGTTTGGGCTAAAAGGGCCACA
131 CTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCACA
57288676 CGAGCGTGTG
Statistics
Matches: 182, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (183 bp):
TGTGTATTTATCACTACTCTTGTTGTTGGATGGCTACTTTGGGCCGCGATGGGCTGAAAGGGGCT
ATATGGGCCCAATGGGCCTACGGGCCCAATTGGATAAGTTGTTTGATTGTGTAGTAAATATTGGA
CTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCACA
Found at i:57288833 original size:27 final size:27
Alignment explanation
Indices: 57288803--57289369 Score: 673
Period size: 27 Copynumber: 21.0 Consensus size: 27
57288793 AAAGTACTCC
57288803 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57288830 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57288857 CGATTTTTA-AG-ATTACCGTTTTACCCT
1 CGA--TTTACAGAATTACCGTTTTACCCT
*
57288884 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57288911 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57288938 TGATTTACAGAATAACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
57288964 CCAGTTTATAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57288992 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
57289019 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57289046 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57289073 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
57289100 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57289127 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
57289154 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57289181 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57289208 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57289235 CAATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
57289262 CAATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57289289 CGATTTATAGAATTA-C-TATTTACCCT
1 CGATTTACAGAATTACCGT-TTTACCCT
* * * *
57289315 CGGTTTACAAAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57289342 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57289369 C
1 C
57289370 AATTGTGAAA
Statistics
Matches: 466, Mismatches: 61, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.01
26 26 0.06
27 424 0.91
28 7 0.02
29 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57289408 original size:27 final size:27
Alignment explanation
Indices: 57289378--57289715 Score: 428
Period size: 27 Copynumber: 12.6 Consensus size: 27
57289368 TCAATTGTGA
* *
57289378 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
57289405 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
57289432 AATTACTAAAATACCCTTATAGGGCAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
57289459 -ATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
57289485 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
57289512 AATTACTAAAATACCCTTATAGGGCAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
57289539 -ATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * *
57289565 AATTACCAAAATACTCCTGTAGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
* *
57289592 AATTACTGAAATACCCATATAGGGGTAG
1 AATTACCGAAATACCCCTATA-GGGTAG
* * *
57289620 AATTACCAAAATACCCCTGTCGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
57289647 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
57289674 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
57289701 AATTACCGAGATACC
1 AATTACCGAAATACC
57289716 TTGTGGGTTA
Statistics
Matches: 265, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 42 0.16
27 202 0.76
28 21 0.08
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:57289420 original size:80 final size:80
Alignment explanation
Indices: 57289377--57289715 Score: 371
Period size: 80 Copynumber: 4.2 Consensus size: 80
57289367 CTCAATTGTG
* * *
57289377 AAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAA
1 AAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCGATAGGATAGAATTACTAAA
*
57289442 ATACCCTTATAGGGC
66 ATACCCTAATAGGGC
* * *
57289457 AGATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAA
1 AAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCGATAGGATAGAATTACTAAA
*
57289522 ATACCCTTATAGGGC
66 ATACCCTAATAGGGC
* * * * * *
57289537 AGATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACTCCTG-TAGGGTAAAATTACTGA
1 AAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC-CCCGATAGGATAGAATTACTAA
*
57289601 AATACCC-ATATAGGGGT
65 AATACCCTA-ATA-GGGC
* * * * * **
57289618 AGAATTACCAAAATACCCCTGTCGGGTAGAATTATCGCAATACCCCTG-TAGGGTAGAATTACCG
1 A-AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCC-GATAGGATAGAATTACTA
*
57289682 AAATACCCCT-ATAGGGT
64 AAATA-CCCTAATAGGGC
*
57289699 AGAATTACCGAGATACC
1 A-AATTACCGAAATACC
57289716 TTGTGGGTTA
Statistics
Matches: 232, Mismatches: 20, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
80 144 0.62
81 27 0.12
82 58 0.25
83 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (80 bp):
AAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCGATAGGATAGAATTACTAAA
ATACCCTAATAGGGC
Found at i:57290395 original size:27 final size:27
Alignment explanation
Indices: 57290365--57290465 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
57290355 ATTCTGTTAA
* *
57290365 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
57290392 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
57290419 GTGGCTCTGCCACAATATCTGTATCAG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
57290446 GTGACTCTGTCACAATATCT
1 GTGGCTATGCCACAATATCT
57290466 AATAACTGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:57290638 original size:31 final size:31
Alignment explanation
Indices: 57290603--57290679 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
57290593 TTGCATTCAC
* *
57290603 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
57290634 ATTCTAATCCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
57290665 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
57290680 TTAGTTATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:57290667 original size:6 final size:6
Alignment explanation
Indices: 57290603--57290679 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
57290593 TTGCATTCAC
* * * *
57290603 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATCCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
57290652 -TCACCTG ATTCTG ATTCTG ATTCTG ATT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATT
57290680 TTAGTTATGA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 3 0.05
6 44 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:57293845 original size:16 final size:16
Alignment explanation
Indices: 57293824--57293862 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
57293814 TATGGCATGT
*
57293824 ATAGCTAGACTCTCAC
1 ATAGCTAGACTCTCAA
57293840 ATAGCTAGACTCTCAA
1 ATAGCTAGACTCTCAA
57293856 ATAGCTA
1 ATAGCTA
57293863 TGTTAGTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
ATAGCTAGACTCTCAA
Found at i:57295037 original size:9 final size:9
Alignment explanation
Indices: 57295025--57295049 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57295015 AAAACACGGA
57295025 AAAGTAAAC
1 AAAGTAAAC
57295034 AAAGTAAAC
1 AAAGTAAAC
57295043 AAAGTAA
1 AAAGTAA
57295050 GCTATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAGTAAAC
Found at i:57297335 original size:41 final size:41
Alignment explanation
Indices: 57297276--57297400 Score: 207
Period size: 41 Copynumber: 3.0 Consensus size: 41
57297266 TTTTTAGACT
* *
57297276 TAGTAAACTTCTGATTTATTACGCACACGATTCAAAAATAC
1 TAGTAAACTTCTGGTTTATTATGCACACGATTCAAAAATAC
57297317 TAGTAAACTTCTGGTTTATTATGCACAC-ATTTCAAAAATAC
1 TAGTAAACTTCTGGTTTATTATGCACACGA-TTCAAAAATAC
*
57297358 TAGTAAACTTCTGGTTTATTATGCACACGATTCAACAATAC
1 TAGTAAACTTCTGGTTTATTATGCACACGATTCAAAAATAC
57297399 TA
1 TA
57297401 ATATATACAT
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.01
41 77 0.97
42 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (41 bp):
TAGTAAACTTCTGGTTTATTATGCACACGATTCAAAAATAC
Found at i:57301497 original size:42 final size:43
Alignment explanation
Indices: 57301397--57301552 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
57301387 CAAAGCTAAC
* *
57301397 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCCACT
* * *
57301440 GTCCCAGACAGGGTCTTACATGAAATCATATAT-GATGTCGA-T
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATG-CCACT
* * *
57301482 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCAATGCCAAC-
1 GTCCCAGACATGGTCTTACATG-AAATC-AAATATCGATGCC-ACT
* *
57301526 GTCCCAGACGTGGTCTTACACGAAATC
1 GTCCCAGACATGGTCTTACATGAAATC
57301553 TCATATCGGA
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 25 0.26
43 44 0.46
44 26 0.27
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCCACT
Found at i:57304154 original size:39 final size:41
Alignment explanation
Indices: 57304111--57304204 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
57304101 AAATCAGTGT
* * * *
57304111 GGGCCTTAGCCCACT-AGATGCAGAATCAGA-AATGTACTA
1 GGGCCTTAGCCCAATCAGATACAAAATCAGACAATATACTA
* *
57304150 GGGCCTTAGCCCAATCAGATACAAAATCAGACCTATATATTA
1 GGGCCTTAGCCCAATCAGATACAAAATCAGA-CAATATACTA
57304192 GGGCCTTAGCCCA
1 GGGCCTTAGCCCA
57304205 TCTCAGGTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 14 0.30
40 13 0.28
42 19 0.41
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
GGGCCTTAGCCCAATCAGATACAAAATCAGACAATATACTA
Found at i:57307482 original size:20 final size:19
Alignment explanation
Indices: 57307446--57307495 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
57307436 AAGGGCTATT
57307446 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
57307465 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
57307485 TTGAAAATGTG
1 TTGTAAATGTG
57307496 AGTTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:57308166 original size:48 final size:47
Alignment explanation
Indices: 57308105--57308271 Score: 167
Period size: 48 Copynumber: 3.5 Consensus size: 47
57308095 TTACAGGAGC
*
57308105 CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG
1 CAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG
** * * ** *
57308152 TCAGTGTAAAACATGTCTGGGACATGCATCAACATTGAGA-CGA-GAG
1 -CAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG
* * * *
57308198 CCAGTGTAAACCATGTCTGGGACATCCATTGGCCTCAAGATATACAAG
1 -CAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG
* *
57308246 CTAGTGTAAGACCTGTCTGGGACATG
1 C-AGTGTAAAACATGTCTGGGACATG
57308272 GCGTTAGCTT
Statistics
Matches: 92, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 33 0.36
47 3 0.03
48 56 0.61
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
CAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG
Found at i:57308232 original size:94 final size:94
Alignment explanation
Indices: 57308101--57308271 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 94
57308091 CACATTACAG
* *
57308101 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAG-TCAGTGTAAAACA
1 GAGCCAGTGTAAGACATGTCTGGGACATCCATCGGCCTCAAGATATACAAGCT-AGTGTAAAACA
57308165 TGTCTGGGACATGCATCAACATTGAGACGA
65 TGTCTGGGACATGCATCAACATTGAGACGA
* * *
57308195 GAGCCAGTGTAA-ACCATGTCTGGGACATCCATTGGCCTCAAGATATACAAGCTAGTGTAAGACC
1 GAGCCAGTGTAAGA-CATGTCTGGGACATCCATCGGCCTCAAGATATACAAGCTAGTGTAAAACA
57308259 TGTCTGGGACATG
65 TGTCTGGGACATG
57308272 GCGTTAGCTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
93 1 0.01
94 68 0.97
95 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATCCATCGGCCTCAAGATATACAAGCTAGTGTAAAACAT
GTCTGGGACATGCATCAACATTGAGACGA
Found at i:57324388 original size:23 final size:23
Alignment explanation
Indices: 57324357--57324400 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57324347 CCGCAAAATA
* *
57324357 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
57324380 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
57324401 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:57325867 original size:39 final size:40
Alignment explanation
Indices: 57325784--57325867 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
57325774 AGTATGTTAT
* ***
57325784 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGAAAA
*
57325824 ATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT-TTGACAAA
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGA-AAA
57325863 ATCCG
1 ATCCG
57325868 AACTTGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 3 0.08
39 16 0.42
40 19 0.50
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGAAAA
Found at i:57326786 original size:23 final size:23
Alignment explanation
Indices: 57326760--57326803 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57326750 CACAAAAATA
* *
57326760 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
57326783 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
57326804 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:57330517 original size:39 final size:40
Alignment explanation
Indices: 57330472--57330603 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
57330462 GCTCCTCGTT
* *
57330472 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* *
57330512 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * *
57330551 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
*
57330591 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
57330604 ATCTTGATCC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
Found at i:57330572 original size:40 final size:39
Alignment explanation
Indices: 57330474--57330656 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
57330464 TCCTCGTTCA
* * *
57330474 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* * *
57330513 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
*
57330552 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* * * * * * *
57330592 AAAGGCCTTC-GGATCTTGATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CAC
* *
57330633 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57330657 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 38 0.32
40 75 0.63
41 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
Found at i:57330645 original size:80 final size:78
Alignment explanation
Indices: 57330472--57330656 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 78
57330462 GCTCCTCGTT
* * *
57330472 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
* *
57330537 TTTAATAACTCGCA
65 TATAATAACTAGCA
* * * * * *
57330551 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCACACAAAGGCCTTC-GGATCTTGATCCG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCG
* *
57330615 GATATATTCACTTAGCA
63 GATATAATAAC-TAGCA
57330632 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
57330657 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 36 0.41
80 46 0.53
81 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
ATAATAACTAGCA
Found at i:57336726 original size:150 final size:150
Alignment explanation
Indices: 57336455--57336754 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
57336445 AGGCAGAATC
57336455 ACGTAGCAAGGAGATAGCACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCC
1 ACGTAGCAAGGAGATAGCACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCC
57336520 GGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGCCTTAAATTTA
66 GGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGCCTTAAATTTA
57336585 GTAGCCCCATGTTTTCGGAT
131 GTAGCCCCATGTTTTCGGAT
57336605 ACGTAGCAAGGAGATAGCACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCC
1 ACGTAGCAAGGAGATAGCACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCC
57336670 GGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGCCTTAAATTTA
66 GGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGCCTTAAATTTA
57336735 GTAGCCCCATGTTTTCGGAT
131 GTAGCCCCATGTTTTCGGAT
57336755 TCTGTCAACT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (150 bp):
ACGTAGCAAGGAGATAGCACACTTTAGGCATTCATCGGGTGTACAAGATAGCTCATCGAGTACCC
GGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCCATAGCCTTAAATTTA
GTAGCCCCATGTTTTCGGAT
Found at i:57342206 original size:47 final size:47
Alignment explanation
Indices: 57341908--57342198 Score: 474
Period size: 47 Copynumber: 6.2 Consensus size: 47
57341898 GAAATGATAG
* * *
57341908 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
*
57341955 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
* * *
57342002 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
*
57342049 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
* * *
57342096 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
*
57342143 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
57342190 TAAGGCCTA
1 TAAGGCCTA
57342199 GGGGCCGAGT
Statistics
Matches: 224, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
Found at i:57342206 original size:94 final size:94
Alignment explanation
Indices: 57341908--57342198 Score: 582
Period size: 94 Copynumber: 3.1 Consensus size: 94
57341898 GAAATGATAG
57341908 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
57341973 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
57342002 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
57342067 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
57342096 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
57342161 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
57342190 TAAGGCCTA
1 TAAGGCCTA
57342199 GGGGCCGAGT
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 197 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
GTGATGAATGCGAAAGTGTATATATGTAA
Found at i:57342429 original size:47 final size:47
Alignment explanation
Indices: 57342364--57342508 Score: 182
Period size: 47 Copynumber: 3.1 Consensus size: 47
57342354 GAAATGATAG
57342364 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGA
* *
57342411 TAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGA
*** * * * * * * *
57342458 CGGGGACGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGA
57342505 TAAG
1 TAAG
57342509 TCCCGAAGGG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.26
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGA
Found at i:57343754 original size:61 final size:61
Alignment explanation
Indices: 57343659--57343784 Score: 216
Period size: 61 Copynumber: 2.1 Consensus size: 61
57343649 TTCCTCTCTG
*
57343659 AGTCTAGTTTCTATAGAAACAAACAGCATCAGTATTGGAGCCCTGTACAAGGAGATATCCA
1 AGTCTAGTTTCTATAGAAACAAACAGCATCAGTATTGAAGCCCTGTACAAGGAGATATCCA
* * *
57343720 AGTCTAGTTTCTATAGAAACAAACGGCATTAGTATTGAAGCCCTGTACAGGGAGATATCCA
1 AGTCTAGTTTCTATAGAAACAAACAGCATCAGTATTGAAGCCCTGTACAAGGAGATATCCA
57343781 AGTC
1 AGTC
57343785 GTAATGCGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (61 bp):
AGTCTAGTTTCTATAGAAACAAACAGCATCAGTATTGAAGCCCTGTACAAGGAGATATCCA
Found at i:57344299 original size:56 final size:56
Alignment explanation
Indices: 57344213--57344323 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
57344203 AATTTTACTA
*
57344213 TTCTGACATGAGTTACAAGTACGGTAATGCCCCTTACCTATTCTGGCGACGGTTAG
1 TTCTGACATGAGTTACAAGTACGGTAATGCCCCTTACCTATTCCGGCGACGGTTAG
*
57344269 TTCTGACATGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCCGGCGACGGTTA
1 TTCTGACATGAGTTACAAGTACGGTAATGCCCCTTACCTATTCCGGCGACGGTTA
57344324 CGGGATAGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (56 bp):
TTCTGACATGAGTTACAAGTACGGTAATGCCCCTTACCTATTCCGGCGACGGTTAG
Found at i:57354714 original size:35 final size:35
Alignment explanation
Indices: 57354668--57354737 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
57354658 AGTACTACAA
*
57354668 ATTCTTTCAGCTCAAGTATCCCAACTAATAGCTTT
1 ATTCTTTCAGCTCAAGTATCCCAACTAACAGCTTT
57354703 ATTCTTTCAGCTCAAGTATCCCAACTAACAGCTTT
1 ATTCTTTCAGCTCAAGTATCCCAACTAACAGCTTT
57354738 TTATCTTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (35 bp):
ATTCTTTCAGCTCAAGTATCCCAACTAACAGCTTT
Found at i:57357347 original size:37 final size:37
Alignment explanation
Indices: 57357297--57357375 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57357287 TTATTACAAA
* * *
57357297 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57357334 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57357371 GTCTT
1 GTCTT
57357376 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57357581 original size:47 final size:47
Alignment explanation
Indices: 57357496--57357622 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
57357486 CTTCGGGACT
* * * *
57357496 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
57357543 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
57357590 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATCCATCACAT
57357623 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 66 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:57365101 original size:69 final size:68
Alignment explanation
Indices: 57364984--57365121 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 68
57364974 CTCAACTTCC
*
57364984 CGATTCGGAGGTAATCCAGGAAGCTCTTCCCGAAAAACATCCCAGAATTCCCTAACAGTTCTGAT
1 CGATTCGGAGGTAATCCAAGAAGCTCTTCCCGAAAAACATCCCAGAATTCCCTAACAGTTCTGAT
57365049 GGT
66 GGT
*
57365052 CNGATTCGGAGGTAATCCAAGAAGCTCTT-CCGAAAAAACATCCCGGAATTCCCTAACAGTTCTG
1 C-GATTCGGAGGTAATCCAAGAAGCTCTTCCCG-AAAAACATCCCAGAATTCCCTAACAGTTCTG
57365116 ATGGT
64 ATGGT
57365121 C
1 C
57365122 TCCACAGTCA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
68 4 0.06
69 62 0.94
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (68 bp):
CGATTCGGAGGTAATCCAAGAAGCTCTTCCCGAAAAACATCCCAGAATTCCCTAACAGTTCTGAT
GGT
Found at i:57368789 original size:24 final size:23
Alignment explanation
Indices: 57368762--57368816 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
57368752 AACGCACTGA
*
57368762 GTGTGCAGTGT-ACTATGGCACTAT
1 GTGTGCAGTGTGACGA--GCACTAT
57368786 GTGTGCGAGTGTGACGAGCACTAT
1 GTGTGC-AGTGTGACGAGCACTAT
57368810 GTGTGCA
1 GTGTGCA
57368817 AATTCGATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 19 0.68
25 5 0.18
26 3 0.11
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.29
Consensus pattern (23 bp):
GTGTGCAGTGTGACGAGCACTAT
Found at i:57384898 original size:46 final size:46
Alignment explanation
Indices: 57384845--57384938 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
57384835 TAGGCATACA
*
57384845 TAATACCAAAACATGTTCTTATTTAGCTATAGAATAAGCTAATCAT
1 TAATACCAAAACATGTTCTTATTTAGCTATAGAATAAGCTAAACAT
57384891 TAATACCAAAACATGTTCTTATTTAGCTATAGAATAAGCTAAACAT
1 TAATACCAAAACATGTTCTTATTTAGCTATAGAATAAGCTAAACAT
57384937 TA
1 TA
57384939 CCAAGTATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (46 bp):
TAATACCAAAACATGTTCTTATTTAGCTATAGAATAAGCTAAACAT
Found at i:57385401 original size:53 final size:54
Alignment explanation
Indices: 57385316--57385522 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
57385306 TTCCTTTTTA
* * * ** *
57385316 AACTTACCATTTCCATGTCTTGACATGGTCTTATGTGGTATCCATGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
57385369 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
57385423 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
57385478 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57385523 CAACCCTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 41 0.33
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:57394222 original size:18 final size:18
Alignment explanation
Indices: 57394199--57394235 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57394189 CTTGGCCTAT
57394199 TGCAGTAACAGTAAATAG
1 TGCAGTAACAGTAAATAG
*
57394217 TGCAGTAATAGTAAATAG
1 TGCAGTAACAGTAAATAG
57394235 T
1 T
57394236 ATGCAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAG
Found at i:57394598 original size:27 final size:26
Alignment explanation
Indices: 57394565--57394656 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 26
57394555 AGGGGCATTT
57394565 CAGTCATTTTACCACATAAGGGTAAAA
1 CAGTCATTTTACCACATAAGGG-AAAA
* *
57394592 CAATCATTTTACTACATAAGGGCAAAA
1 CAGTCATTTTACCACATAAGGG-AAAA
*
57394619 TAGTCATTTTACCACATAAGGGAAAA
1 CAGTCATTTTACCACATAAGGGAAAA
57394645 GCAGTCATTTTA
1 -CAGTCATTTTA
57394657 TTGATTAGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 53 0.93
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (26 bp):
CAGTCATTTTACCACATAAGGGAAAA
Found at i:57396786 original size:27 final size:27
Alignment explanation
Indices: 57396756--57396856 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
57396746 TACTGAAATG
*
57396756 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** *
57396783 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
57396810 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
57396837 CCCTCGATTTAAAAAATTAC
1 CCCTCGATTTATAGAATTAC
57396857 TGAAATACCC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:57396828 original size:54 final size:54
Alignment explanation
Indices: 57396756--57396858 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
57396746 TACTGAAATG
** * * *
57396756 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAAAAAATTACTGTTTCA
57396810 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAAAAAATTACTG
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAAAAAATTACTG
57396859 AAATACCCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAAAAAATTACTGTTTCA
Found at i:57396881 original size:27 final size:27
Alignment explanation
Indices: 57396851--57397206 Score: 423
Period size: 27 Copynumber: 13.2 Consensus size: 27
57396841 CGATTTAAAA
*
57396851 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57396878 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57396905 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57396932 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57396959 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
**
57396986 AATTACTGAAATACCCCTACAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
57397013 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
57397040 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57397067 AATTA-TCGGAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
57397094 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57397121 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
57397148 AATTACTAAAATACCCCTATATGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
57397175 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57397201 AATTAC
1 AATTAC
57397207 CATTTTGCCC
Statistics
Matches: 286, Mismatches: 39, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
26 13 0.05
27 272 0.95
28 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57397686 original size:22 final size:22
Alignment explanation
Indices: 57397635--57397698 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
57397625 TAAATCCTTT
*
57397635 TGATTATGGCTT-TGTGTCAACC
1 TGATTATGG-TTGTGTGCCAACC
*
57397657 T-ACATATGGTTGTGTGCCAACC
1 TGA-TTATGGTTGTGTGCCAACC
* *
57397679 TGATTATGGCTGTTTGCCAA
1 TGATTATGGTTGTGTGCCAA
57397699 ACATATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.88
23 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (22 bp):
TGATTATGGTTGTGTGCCAACC
Found at i:57397887 original size:27 final size:26
Alignment explanation
Indices: 57397857--57397958 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
57397847 ATTCTGTTAA
* *
57397857 GTGGCTTTGCCATATTATCTGTTTTTG
1 GTGGCTTTGCCA-AATATCTGTTTCTG
*
57397884 GTGGCTATGGCACAAATATCTG-TTCTG
1 GTGGCT-TTGC-CAAATATCTGTTTCTG
* *
57397911 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCA-AATATCTGTTTCTG
* * *
57397938 GTGACTCTGTCACAATATCTG
1 GTGGCTTTGCCA-AATATCTG
57397959 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.03
26 10 0.16
27 39 0.62
28 10 0.16
29 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCAAATATCTGTTTCTG
Found at i:57397916 original size:54 final size:53
Alignment explanation
Indices: 57397857--57397958 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
57397847 ATTCTGTTAA
* * * * * *
57397857 GTGGCTTTGCCATATTATCTGTTTTTGGTGGCTATGGCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGGCAC-AATATCTGTTCTG
* *
57397911 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGGCACAATATCTG
57397959 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGGCACAATATCTGTTCTG
Found at i:57398141 original size:31 final size:31
Alignment explanation
Indices: 57398095--57398204 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
57398085 TTGCATTCAC
* *
57398095 ATTCTGATTTTTGATTTTGTTACCTGATACTTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATAC-TG
*
57398128 -TTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
57398158 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
57398189 ATTCTGATTCTGATTC
1 ATTCTGATTCTGATTC
57398205 CAGTTCTGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
30 2 0.03
31 63 0.89
32 6 0.08
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:57398158 original size:6 final size:6
Alignment explanation
Indices: 57398128--57398204 Score: 68
Period size: 6 Copynumber: 12.5 Consensus size: 6
57398118 CTGATACTTG
* *
57398128 TTCTGA TTTTGA TTCTG- TTACCTGA TACTGA TTCTGA TTCTGA TTCTG-
1 TTCTGA TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA
* *
57398176 TCACCTAA TTCTGA TTCTGA TTCTGA TTC
1 T--TCTGA TTCTGA TTCTGA TTCTGA TTC
57398205 CAGTTCTGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.05
6 47 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
TTCTGA
Found at i:57412897 original size:40 final size:40
Alignment explanation
Indices: 57412860--57413045 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
57412850 GCTACTCGTT
*
57412860 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
57412900 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
57412940 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * **
57412980 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57413021 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57413046 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.89
41 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57417835 original size:22 final size:23
Alignment explanation
Indices: 57417788--57417837 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
57417778 CATTTGAGAT
*
57417788 TGAAATTCAATCTGATATGACTTA
1 TGAAATTCAATCTCATA-GACTTA
57417812 TGAAATTCAATCTCATA-ACTTA
1 TGAAATTCAATCTCATAGACTTA
57417834 TGAA
1 TGAA
57417838 GAACTGCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
24 16 0.64
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (23 bp):
TGAAATTCAATCTCATAGACTTA
Found at i:57418204 original size:20 final size:21
Alignment explanation
Indices: 57418179--57418221 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
57418169 TCGCGTAAAA
57418179 TGTTAAAGTAGCCT-TTTG-TT
1 TGTTAAAGTA-CCTATTTGATT
57418199 TGTTAAAGTACCTATTTGATT
1 TGTTAAAGTACCTATTTGATT
57418220 TG
1 TG
57418222 GCTTTCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (21 bp):
TGTTAAAGTACCTATTTGATT
Found at i:57423366 original size:65 final size:65
Alignment explanation
Indices: 57423262--57423392 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
57423252 CCCCTAGGGT
* *
57423262 TAAGGTTGATCTGAATGCTTGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
57423327 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
57423392 T
1 T
57423393 GCATAGGACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:57423378 original size:30 final size:30
Alignment explanation
Indices: 57423281--57423379 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 30
57423271 TCTGAATGCT
57423281 TGTTTGACTGTTACTATTTACTGCATGCCA
1 TGTTTGACTGTTACTATTTACTGCATGCCA
* * *
57423311 TG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-CA
1 TGTTTGACTGTTA-CT-AT----TT-A-CTGCATGCCA
57423346 TGTTTGACTGTTACTATTTACTGCATGCCA
1 TGTTTGACTGTTACTATTTACTGCATGCCA
57423376 TGTT
1 TGTT
57423380 ATTATTATCT
Statistics
Matches: 52, Mismatches: 6, Indels: 22
0.65 0.08 0.28
Matches are distributed among these distances:
28 5 0.10
29 10 0.19
30 11 0.21
31 2 0.04
34 2 0.04
35 7 0.13
36 10 0.19
37 5 0.10
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (30 bp):
TGTTTGACTGTTACTATTTACTGCATGCCA
Found at i:57426671 original size:21 final size:22
Alignment explanation
Indices: 57426615--57426672 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
57426605 ATATTGTTAT
57426615 ACATGATATGAC-ATG-GTATGC
1 ACATGATATG-CTATGAGTATGC
*
57426636 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
57426657 ACATGATATGCTATGA
1 ACATGATATGCTATGA
57426673 TATACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:57426780 original size:24 final size:25
Alignment explanation
Indices: 57426723--57426780 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
57426713 AGGAAGTGCG
57426723 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTACC
**
57426747 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTACC
57426771 AAAAGAGGCT
1 AAAAGAGGCT
57426781 AGCTCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTACC
Found at i:57427856 original size:21 final size:22
Alignment explanation
Indices: 57427830--57427884 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
57427820 GTCGATTTTT
* *
57427830 ACACGGGCATGTGCC-TTGGTC
1 ACACGGGCATGTGCCTTTAGCC
*
57427851 ACACGGCCATGT-CCTTTAGCC
1 ACACGGGCATGTGCCTTTAGCC
*
57427872 ACACGGGCGTGTG
1 ACACGGGCATGTG
57427885 TGATTTCCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.22
Consensus pattern (22 bp):
ACACGGGCATGTGCCTTTAGCC
Found at i:57427986 original size:21 final size:21
Alignment explanation
Indices: 57427957--57428007 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
57427947 ACGAGTTATT
* *
57427957 CACACGGGCGTGTGTCCCCTC
1 CACATGGGCGTGTGTACCCTC
* *
57427978 CACATGGGCGTGTGTAGCCTT
1 CACATGGGCGTGTGTACCCTC
57427999 CACATGGGC
1 CACATGGGC
57428008 ATATGGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.22
Consensus pattern (21 bp):
CACATGGGCGTGTGTACCCTC
Found at i:57428558 original size:38 final size:37
Alignment explanation
Indices: 57428472--57428567 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 37
57428462 TTAGTTCCAC
* *
57428472 CATATGTGGTGTGTAGGGTGGACGGGCCTAGCATGGT
1 CATATGTGGTGTGCAGGGTGGACGGGCCTAGCATGCT
* * * * *
57428509 CTTATGTGGTGTGGAGGGTGGATGGGCTTATTGTA-GCT
1 CATATGTGGTGTGCAGGGTGGACGGGCCTA--GCATGCT
*
57428547 CATATGTGGTGTACAGGGTGG
1 CATATGTGGTGTGCAGGGTGG
57428568 TCGAAGTGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 26 0.54
38 20 0.42
39 2 0.04
ACGTcount: A:0.16, C:0.10, G:0.43, T:0.31
Consensus pattern (37 bp):
CATATGTGGTGTGCAGGGTGGACGGGCCTAGCATGCT
Found at i:57432023 original size:43 final size:43
Alignment explanation
Indices: 57431965--57432081 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 43
57431955 CAATACCAAC
*
57431965 GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCC-ACT
1 GTCCCTGACATGGTCTTACATGTAATCACATATCGATGCCGA-T
* *
57432008 GTCCCTGACAGGGTCTTACATG-AATCAAATA-CGATGCCGAT
1 GTCCCTGACATGGTCTTACATGTAATCACATATCGATGCCGAT
* *
57432049 GT-CCTAGACATGGTCTTACACGTAACCACATAT
1 GTCCCT-GACATGGTCTTACATGTAATCACATAT
57432082 ATCGTTGCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
40 3 0.05
41 24 0.38
42 16 0.25
43 20 0.32
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCTGACATGGTCTTACATGTAATCACATATCGATGCCGAT
Found at i:57432064 original size:41 final size:43
Alignment explanation
Indices: 57431965--57432113 Score: 137
Period size: 41 Copynumber: 3.5 Consensus size: 43
57431955 CAATACCAAC
* *
57431965 GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCTAGACATGGTCTTACATGTAATCAAATATCGATGCCACT
*
57432008 GTCCCT-GACAGGGTCTTACATG-AATCAAATA-CGATGCCGA-T
1 GT-CCTAGACATGGTCTTACATGTAATCAAATATCGATGCC-ACT
* * *
57432049 GTCCTAGACATGGTCTTACACGTAACCACATATATCGTTGCCAACT
1 GTCCTAGACATGGTCTTACATGTAATCA-A-ATATCGATGCC-ACT
* **
57432095 -TCCCAGATGTGGTCTTACA
1 GTCCTAGACATGGTCTTACA
57432114 CGAGAACACA
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.03
41 24 0.28
42 13 0.15
43 18 0.21
44 5 0.06
45 23 0.26
46 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCCTAGACATGGTCTTACATGTAATCAAATATCGATGCCACT
Found at i:57438170 original size:42 final size:43
Alignment explanation
Indices: 57438105--57438204 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
57438095 AACTTATGAT
* * * * *
57438105 TTACGTGTAAGACCATGTCTGGGAAATTGGCATC-TTATTTAA
1 TTACATGTAAGACCATATCTGGGAAACTGGCATCAATACTTAA
* * * * *
57438147 TTTCATGTAAGACCCTATTTGGGACACTGGCATCAATACTTGA
1 TTACATGTAAGACCATATCTGGGAAACTGGCATCAATACTTAA
57438190 TTACATGTAAGACCA
1 TTACATGTAAGACCA
57438205 CATTTAAGAC
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTGGGAAACTGGCATCAATACTTAA
Found at i:57442022 original size:25 final size:23
Alignment explanation
Indices: 57441970--57442022 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
57441960 AGCCATAGAA
* *
57441970 CAGGATGTTCAAGTGAGCCATAT
1 CAGGATGCTCAAGAGAGCCATAT
57441993 CAGGATGCTCAAGAAGAGCCTATAT
1 CAGGATGCTCAAG-AGAGCC-ATAT
*
57442018 TAGGA
1 CAGGA
57442023 CACTCATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.48
24 5 0.20
25 8 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (23 bp):
CAGGATGCTCAAGAGAGCCATAT
Found at i:57443938 original size:34 final size:34
Alignment explanation
Indices: 57443887--57443960 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
57443877 GTTAGATCAG
*
57443887 AATAGTGGTTTCAGGACCATGAACCCACAA-TAGA
1 AATATTGGTTTCAGGACCATGAACCCA-AAGTAGA
* *
57443921 AATATTGGTTTCGGGACCATTAACCCAAAGTAGA
1 AATATTGGTTTCAGGACCATGAACCCAAAGTAGA
57443955 AATATT
1 AATATT
57443961 CATTTTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 2 0.06
34 34 0.94
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (34 bp):
AATATTGGTTTCAGGACCATGAACCCAAAGTAGA
Found at i:57448158 original size:51 final size:52
Alignment explanation
Indices: 57448037--57448169 Score: 166
Period size: 51 Copynumber: 2.6 Consensus size: 52
57448027 ACGTCACTAG
**
57448037 TGACT-CAAGTGTGGTACTATGTGAAGGCTGCTTTGTGCAAAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGCAAAAAGATAGCTT
* * *
57448088 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGCAAAAAGATAGCTT
*
57448139 TGACTACAAGGGTGGTACTATGT-ACAGGCCA
1 TGACTACAAGTGTGGTACTATGTGA-AGGCCA
57448170 TCAGGTATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
50 2 0.03
51 38 0.54
52 31 0.44
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (52 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGCAAAAAGATAGCTT
Found at i:57451633 original size:40 final size:39
Alignment explanation
Indices: 57451589--57451669 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
57451579 AATCATCAGT
* * *
57451589 ACAAAGCATGCAGGACTTTAAGCCCGGATATAATACCAGC
1 ACAAAGCATACAGGACTTT-AGCCCGAATATAACACCAGC
* * *
57451629 ACAAAGCCTACGGGACTTTAGCCCGAATATAACACTAGC
1 ACAAAGCATACAGGACTTTAGCCCGAATATAACACCAGC
57451668 AC
1 AC
57451670 GAATGCCTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (39 bp):
ACAAAGCATACAGGACTTTAGCCCGAATATAACACCAGC
Found at i:57451669 original size:39 final size:40
Alignment explanation
Indices: 57451601--57451738 Score: 183
Period size: 39 Copynumber: 3.5 Consensus size: 40
57451591 AAAGCATGCA
* * *
57451601 GGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTACG
1 GGACTTT-AGCCCGGATATAACACCAGCACGAATGCCTTCG
* *
57451641 GGACTTTAGCCCGAATATAACACTAGCACGAATGCCTTCG
1 GGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCG
* *
57451681 GG-GTTTGGCCCGGATATAACACCAGCACGAATGCCTTCG
1 GGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCG
57451720 GGAC-TTAGCCCGGATATAA
1 GGACTTTAGCCCGGATATAA
57451739 TTCTCCATTA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 68 0.80
40 17 0.20
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (40 bp):
GGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCG
Found at i:57469856 original size:31 final size:31
Alignment explanation
Indices: 57469813--57469873 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
57469803 TTGCATTCAT
*
57469813 TTTATTTAACATGTATATCACCAAATCAATC
1 TTTATTTAACATGTACATCACCAAATCAATC
*
57469844 TTTATTTCACATGTACATCACCAAATCAAT
1 TTTATTTAACATGTACATCACCAAATCAAT
57469874 GTCATATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTATTTAACATGTACATCACCAAATCAATC
Found at i:57470188 original size:39 final size:39
Alignment explanation
Indices: 57470132--57470388 Score: 365
Period size: 39 Copynumber: 6.5 Consensus size: 39
57470122 ACAAAGCATG
* * *
57470132 CGGGACCTTAAGCCCGGATATAATACCAGCAC-AAAGCCTA
1 CGGGA-CTT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
57470172 CGAGACTTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
**
57470212 CGGGGA-TTAGCCCGGATATAGGACCAGCACGAATGCCTT
1 C-GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57470251 CGGGACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57470290 CGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
57470329 CGGGACTTAGCCCGGATATAACAGTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
57470368 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
57470389 TTCTCCATTA
Statistics
Matches: 196, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 4 0.02
39 176 0.90
40 13 0.07
41 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:57477646 original size:40 final size:40
Alignment explanation
Indices: 57477572--57477782 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
57477562 TCTTCGAGAT
* * *
57477572 TTAG-CCGGATATAGCCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
57477610 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
57477650 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
57477690 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
57477730 TTAGTCTGGATATAGTCACTAGCATTAAA-GCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCA-CAAATGCCTTCGGGTC
57477770 TTAGCCCGGATAT
1 TTAGCCCGGATAT
57477783 CATTCGAATA
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
38 4 0.03
39 17 0.12
40 122 0.83
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:57481764 original size:40 final size:40
Alignment explanation
Indices: 57480803--57481750 Score: 1792
Period size: 40 Copynumber: 23.7 Consensus size: 40
57480793 TATTCGGATG
* * *
57480803 ATAACCGGGCTAAGTCCCGAAGTCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57480843 A-ATTCCAGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57480882 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57480922 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57480962 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481002 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481042 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481082 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481122 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481162 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481202 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481242 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481282 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481322 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481362 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481402 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481442 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481482 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481522 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481562 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481602 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481642 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57481682 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57481722 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
57481751 AGCAAGTAGC
Statistics
Matches: 892, Mismatches: 13, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
39 33 0.04
40 859 0.96
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57484457 original size:13 final size:14
Alignment explanation
Indices: 57484439--57484468 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
57484429 CTGTAAAGAT
57484439 TATACATT-TCATA
1 TATACATTCTCATA
57484452 TATACATTCTCATA
1 TATACATTCTCATA
57484466 TAT
1 TAT
57484469 CGTACTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
TATACATTCTCATA
Found at i:57492836 original size:27 final size:27
Alignment explanation
Indices: 57492795--57492907 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
57492785 GAGGAAACGT
* *
57492795 TCTGGTGGCTGTGCCACAAATATCT-AA
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
57492822 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
57492850 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
57492877 TCTAGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
57492903 TCTGG
1 TCTGG
57492908 CAGTCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.05
27 56 0.73
28 17 0.22
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:57492889 original size:55 final size:53
Alignment explanation
Indices: 57492793--57492907 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 53
57492783 TGGAGGAAAC
* * *
57492793 GTTCTGGTGGCTGTGCCACAAATATCTAATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTAATCTAGTGACTCTGCCAC-AATATCT
* *
57492847 GTTTCTGGTGGCTCTGCCAC-AATATCTGTATCTAGTGACTCTGTCACAATATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCT-AATCTAGTGACTCTGCCACAATATCT
57492901 GTTCTGG
1 GTTCTGG
57492908 CAGTCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 6 0.11
54 16 0.30
55 32 0.59
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (53 bp):
GTTCTGGTGGCTCTGCCACAAATATCTAATCTAGTGACTCTGCCACAATATCT
Found at i:57499658 original size:20 final size:20
Alignment explanation
Indices: 57499635--57499681 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
57499625 GGGTTAAGAT
*
57499635 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
57499655 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
57499675 TGAGCTG
1 TGAGCTG
57499682 GAAACAAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:57508264 original size:20 final size:20
Alignment explanation
Indices: 57508241--57508287 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57508231 AGGTTAAGAT
*
57508241 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
57508261 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
57508281 TGAGCTG
1 TGAGCTG
57508288 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:57517563 original size:65 final size:65
Alignment explanation
Indices: 57517455--57517585 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
57517445 CCCCTAGGGT
* * *
57517455 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTTTTTGCTGCATGCCATGTTATTATTATCTGA
1 TAAGGATGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
57517520 TAAGGATGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGATGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
57517585 T
1 T
57517586 GCATGGGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (65 bp):
TAAGGATGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:57519006 original size:34 final size:34
Alignment explanation
Indices: 57518955--57519025 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
57518945 ATTTTTTAGT
*
57518955 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGAC-GAGACAG
* *
57518989 TAGGG-AAAACTGAAAACTTTAGAAGACGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACGAGACAG
57519023 TAG
1 TAG
57519026 CTAGGTACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 6 0.19
34 24 0.75
35 2 0.06
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (34 bp):
TAGGGTAAAACTGAAACTGTAGAAGACGAGACAG
Found at i:57520208 original size:14 final size:14
Alignment explanation
Indices: 57520189--57520218 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
57520179 TTTTTCTGTC
57520189 TTGGAGAATTAGGG
1 TTGGAGAATTAGGG
57520203 TTGGAGAATTAGGG
1 TTGGAGAATTAGGG
57520217 TT
1 TT
57520219 AGCCACCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (14 bp):
TTGGAGAATTAGGG
Found at i:57524275 original size:65 final size:65
Alignment explanation
Indices: 57524171--57524301 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
57524161 CCCCTAGGGT
**
57524171 TAAGGTTGACCTGCATACATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTAAATACATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
* *
57524236 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTGTTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTAAATACATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
57524301 T
1 T
57524302 GCGTGGGACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTAAATACATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:57526127 original size:48 final size:48
Alignment explanation
Indices: 57526065--57526160 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
57526055 CGATCTCTGT
*
57526065 GTGAATCCCCAGCTGAAACTGCCATTCGAGGGTTTGTCTCTTTGGACC
1 GTGAATCCCCAGCTGAAACTGCCATTCGAGGGTTTGTCACTTTGGACC
*
57526113 GTGAATCCCTAGCTGAAACTGCCATTCGAGGGTTTGTCACTTTGGACC
1 GTGAATCCCCAGCTGAAACTGCCATTCGAGGGTTTGTCACTTTGGACC
57526161 TCTTTGATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (48 bp):
GTGAATCCCCAGCTGAAACTGCCATTCGAGGGTTTGTCACTTTGGACC
Found at i:57528591 original size:11 final size:11
Alignment explanation
Indices: 57528571--57528610 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
57528561 ACTAAATAAT
57528571 TAATAATAAAA
1 TAATAATAAAA
*
57528582 TAATAGTAAAA
1 TAATAATAAAA
57528593 TATATAATTAAAA
1 TA-ATAA-TAAAA
57528606 TAATA
1 TAATA
57528611 TATTTCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 12 0.48
12 6 0.24
13 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:57534223 original size:27 final size:26
Alignment explanation
Indices: 57534167--57534223 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
57534157 CAACCTTAAC
* * *
57534167 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
57534193 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
57534220 CCTA
1 CCTA
57534224 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:57549640 original size:27 final size:26
Alignment explanation
Indices: 57549623--57549692 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
57549613 ATATTAAGTC
57549623 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
57549650 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
57549678 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57549693 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:57549686 original size:28 final size:28
Alignment explanation
Indices: 57549623--57549720 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
57549613 ATATTAAGTC
*
57549623 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
57549650 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57549678 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57549707 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57549721 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57553081 original size:27 final size:26
Alignment explanation
Indices: 57553025--57553081 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
57553015 CAACCTTAAC
* * *
57553025 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
57553051 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
57553078 CCTA
1 CCTA
57553082 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:57567354 original size:25 final size:25
Alignment explanation
Indices: 57567292--57567354 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
57567282 GAAGTGGCAA
*
57567292 GTGGCGTCACATATGGGGCCCAGAG
1 GTGGCGTCACATGTGGGGCCCAGAG
57567317 GTGGCGTCACATGTGGGGCCCAGAG
1 GTGGCGTCACATGTGGGGCCCAGAG
57567342 GTGGCGTCACATG
1 GTGGCGTCACATG
57567355 CTTGACAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (25 bp):
GTGGCGTCACATGTGGGGCCCAGAG
Found at i:57568661 original size:28 final size:29
Alignment explanation
Indices: 57568578--57568672 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
57568568 AAAGCATGAC
57568578 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* * **
57568607 TACGAATGTGATTTGGACCTACCGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
57568636 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
57568664 TATGCATGT
1 TATGAATGT
57568673 ATGTAGACTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:57569054 original size:227 final size:227
Alignment explanation
Indices: 57568659--57569114 Score: 840
Period size: 227 Copynumber: 2.0 Consensus size: 227
57568649 GGGCCTAGTG
57568659 GGCCATATGCATGTATGTAGACTTGTTTGGGCTTTGTAAGGGGTTTTGGGCTTAGTATCTGAAAC
1 GGCCATATGCATGTATGTAGACTTGTTTGGGCTTTGTAAGGGGTTTTGGGCTTAGTATCTGAAAC
* *
57568724 TGCTTAAACGGACAGACAACTTAATTAATTTATTGCGACCATGGACGAGTCATAAGGTTAAGGTG
66 TGCTTAAACAGACAGACAACTTAATTAATTTATTGCGAACATGGACGAGTCATAAGGTTAAGGTG
* * *
57568789 TGGTAATGGGTATATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTTAAGCAGTCTCAA
131 TAGTAATGGGTATATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTGAAGCAGGCTCAA
57568854 TGACTCACCTCCTCTTCTCTGGAATCCTACCT
196 TGACTCACCTCCTCTTCTCTGGAATCCTACCT
*
57568886 GGCCATATGCATGTATGTAGACTTGTTTGGGCTTTGTAAGGGGTTTTGGGCTTAGTATTTGAAAC
1 GGCCATATGCATGTATGTAGACTTGTTTGGGCTTTGTAAGGGGTTTTGGGCTTAGTATCTGAAAC
57568951 TGCTTAAACAGACAGACAACTTAATTAATTTATTGCGAACATGGACGAGTCATAAGGTTAAGGTG
66 TGCTTAAACAGACAGACAACTTAATTAATTTATTGCGAACATGGACGAGTCATAAGGTTAAGGTG
*
57569016 TAGTAATGGGTATATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTGAAGCGGGCTCAA
131 TAGTAATGGGTATATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTGAAGCAGGCTCAA
*
57569081 TGAGTCACCTCCTCTTCTCTGGAATCCTACCT
196 TGACTCACCTCCTCTTCTCTGGAATCCTACCT
57569113 GG
1 GG
57569115 TGCATAGTAT
Statistics
Matches: 221, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 221 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (227 bp):
GGCCATATGCATGTATGTAGACTTGTTTGGGCTTTGTAAGGGGTTTTGGGCTTAGTATCTGAAAC
TGCTTAAACAGACAGACAACTTAATTAATTTATTGCGAACATGGACGAGTCATAAGGTTAAGGTG
TAGTAATGGGTATATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTGAAGCAGGCTCAA
TGACTCACCTCCTCTTCTCTGGAATCCTACCT
Found at i:57577650 original size:17 final size:18
Alignment explanation
Indices: 57577617--57577650 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57577607 TCTAAGGAAG
57577617 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
57577635 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
57577651 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:57580952 original size:47 final size:48
Alignment explanation
Indices: 57580891--57581053 Score: 196
Period size: 47 Copynumber: 3.5 Consensus size: 48
57580881 TATGAGAGCC
57580891 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGACGAGTGCT
* * * *
57580939 AGTGTAAGA-CATGTCTGGAACAT-GCATCGTCCACATT-ATGA-GA--GCC
1 AGTGTAAGACCATGTCTGGGACGTGGCATCG---GCATTGA-GACGAGTGCT
57580985 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGACGAGTGCT
*
57581033 AGTGTAAGA-CATGTTTGGGAC
1 AGTGTAAGACCATGTCTGGGAC
57581054 ATGCATCAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
45 6 0.06
46 20 0.21
47 35 0.36
48 29 0.30
49 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACGTGGCATCGGCATTGAGACGAGTGCT
Found at i:57580989 original size:46 final size:47
Alignment explanation
Indices: 57580840--57581003 Score: 196
Period size: 46 Copynumber: 3.5 Consensus size: 47
57580830 TCATTTGTGT
*
57580840 GAGCTAGTGTAAGA-CATGTCTGGAACATGCATCGTCCACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGCATCGTCCACATTATGA
* * *
57580886 GAGCCAGTGTAAGACCATGTCTGGGACGTGGCATCG---GCATTGA-GA
1 GAGCCAGTGTAAGACCATGTCTGGAACAT-GCATCGTCCACATT-ATGA
*
57580931 CGAGTGCTAGTGTAAGA-CATGTCTGGAACATGCATCGTCCACATTATGA
1 -GA--GCCAGTGTAAGACCATGTCTGGAACATGCATCGTCCACATTATGA
57580980 GAGCCAGTGTAAGACCATGTCTGG
1 GAGCCAGTGTAAGACCATGTCTGG
57581004 GACGTGGCAT
Statistics
Matches: 98, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
45 6 0.06
46 33 0.34
47 33 0.34
48 20 0.20
49 6 0.06
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGCATCGTCCACATTATGA
Found at i:57581003 original size:94 final size:94
Alignment explanation
Indices: 57580842--57581060 Score: 420
Period size: 94 Copynumber: 2.3 Consensus size: 94
57580832 ATTTGTGTGA
57580842 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
57580907 TGGGACGTGGCATCGGCATTGAGACGAGT
66 TGGGACGTGGCATCGGCATTGAGACGAGT
57580936 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
57581001 TGGGACGTGGCATCGGCATTGAGACGAGT
66 TGGGACGTGGCATCGGCATTGAGACGAGT
* *
57581030 GCTAGTGTAAGACATGTTTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGAACATGCATC
57581061 AGCCTCAGGA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 123 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACGTGGCATCGGCATTGAGACGAGT
Found at i:57581079 original size:94 final size:94
Alignment explanation
Indices: 57580842--57581099 Score: 389
Period size: 94 Copynumber: 2.8 Consensus size: 94
57580832 ATTTGTGTGA
**
57580842 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACAACATGAGAGCCAGTGTAAGACCATGTC
57580907 TGGGACGTGGCATCGGCATTGAGACGAGT
66 TGGGACGTGGCATCGGCATTGAGACGAGT
**
57580936 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACAACATGAGAGCCAGTGTAAGACCATGTC
57581001 TGGGACGTGGCATCGGCATTGAGACGAGT
66 TGGGACGTGGCATCGGCATTGAGACGAGT
* * * *
57581030 GCTAGTGTAAGACATGTTTGGGACATGCATCAG-CCTCAGGACAT-A-AGCCAGTATAAGA-CAT
1 GCTAGTGTAAGACATGTCTGGAACATGCATC-GTCCACA--ACATGAGAGCCAGTGTAAGACCAT
57581091 GTCTGGGAC
63 GTCTGGGAC
57581100 ATGCATTGGC
Statistics
Matches: 155, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
93 12 0.08
94 139 0.90
95 2 0.01
96 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCGTCCACAACATGAGAGCCAGTGTAAGACCATGTC
TGGGACGTGGCATCGGCATTGAGACGAGT
Found at i:57586330 original size:17 final size:17
Alignment explanation
Indices: 57586308--57586341 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
57586298 TTTGCCGGTA
57586308 ACTATAGCTATAGTGAG
1 ACTATAGCTATAGTGAG
57586325 ACTATAGCTATAGTGAG
1 ACTATAGCTATAGTGAG
57586342 TCAACTAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (17 bp):
ACTATAGCTATAGTGAG
Found at i:57587783 original size:55 final size:55
Alignment explanation
Indices: 57587714--57587842 Score: 179
Period size: 55 Copynumber: 2.3 Consensus size: 55
57587704 TGCCCTTAGC
* * *
57587714 CCGTGTGCAACACTGACTTTAAAACACGGCCATGCCACATGCCCGTGTGGCCTG-
1 CCGTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTGA
* *
57587768 CTCGTGTACAACACTGACTTTGAAACACGGCTATGACACACGCCCGTGTGGCCTGA
1 C-CGTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTGA
* *
57587824 CCGTGTTCAACACTAACTT
1 CCGTGTACAACACTGACTT
57587843 CAAATTTTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 64 0.97
56 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (55 bp):
CCGTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTGA
Found at i:57588749 original size:46 final size:47
Alignment explanation
Indices: 57588598--57588865 Score: 280
Period size: 46 Copynumber: 5.7 Consensus size: 47
57588588 GATAAGTTGC
* * *
57588598 CGATGCCATGTCCCGGACATGGTCTTACACTGGC-TATCACCATCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TCGAGGA
* *** * *
57588647 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTGT-CATAAGGTGGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGA
* *
57588695 CGAGGCATGTTCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGA
57588741 CGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGA
* * * *
57588787 CGATGCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGT
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGA
*
57588834 CGATGCATGTTCCAGACAT-GTCTTACACTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC
57588866 ACACATATAA
Statistics
Matches: 189, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 94 0.50
47 50 0.26
48 9 0.05
49 34 0.18
51 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGA
Found at i:57588805 original size:139 final size:143
Alignment explanation
Indices: 57588598--57588865 Score: 438
Period size: 139 Copynumber: 1.9 Consensus size: 143
57588588 GATAAGTTGC
* *
57588598 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCACCATCGAGGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACCATCGAGGACGATGCCATGTCCCAG
*
57588663 ACATGGTCTTACATTGGCTGTCATAAGGTGGTCGAGGCATGTTCCAGACATGTCTTACACTGGCT
66 ACATGGTCTTACATTGGCTCTCATAAGGTGGTCGAGGCATGTTCCAGACATGTCTTACACTGGCT
57588728 TACATCTCGAGGA
131 TACATCTCGAGGA
*
57588741 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATC-TCGAGGACGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CACCATCGAGGACGATGCCATGTCCCA
* *
57588801 GACATGGTCTTACATTGGCTCTCATAATGTGGTCGATGCATGTTCCAGACATGTCTTACACTGGC
65 GACATGGTCTTACATTGGCTCTCATAAGGTGGTCGAGGCATGTTCCAGACATGTCTTACACTGGC
57588866 ACACATATAA
Statistics
Matches: 118, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
139 71 0.60
140 12 0.10
141 17 0.14
142 13 0.11
143 5 0.04
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (143 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACCATCGAGGACGATGCCATGTCCCAG
ACATGGTCTTACATTGGCTCTCATAAGGTGGTCGAGGCATGTTCCAGACATGTCTTACACTGGCT
TACATCTCGAGGA
Found at i:57588820 original size:93 final size:93
Alignment explanation
Indices: 57588598--57588865 Score: 285
Period size: 93 Copynumber: 2.8 Consensus size: 93
57588588 GATAAGTTGC
* * *
57588598 CGATGCCATGTCCCGGACATGGTCTTACACTGGC-TATCACCATCGAGGCCGATGCCATGTCCCA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TCGAGGACGATG-CATGTCCCA
* * * *
57588662 GACATGGTCTTACATTGGCTGTCATAAGGTGGT
62 GACAT-GTCTTACACTGGCTGTCATAACGAGGA
* *
57588695 CGAGGCATGTTCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGACGATGCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGACGATGCATGTCCCAGACA
**
57588759 TGTCTTACACTGGCT-TACATCTCGAGGA
66 TGTCTTACACTGGCTGT-CATAACGAGGA
* * * * *
57588787 CGATGCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGTCGATGCATGTTCCAGA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGACGATGCATGTCCCAGA
57588850 CATGTCTTACACTGGC
64 CATGTCTTACACTGGC
57588866 ACACATATAA
Statistics
Matches: 148, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
91 1 0.01
92 36 0.24
93 64 0.43
94 13 0.09
95 16 0.11
96 14 0.09
97 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGACGATGCATGTCCCAGACA
TGTCTTACACTGGCTGTCATAACGAGGA
Done.