Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 313 of 318
Found at i:97178596 original size:47 final size:47
Alignment explanation
Indices: 97178527--97178697 Score: 168
Period size: 47 Copynumber: 3.6 Consensus size: 47
97178517 AGTGATTTCC
* * *
97178527 GTATAATACCATATCTGGGATATGACATCAGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGACATCAGTGTGATATGTGATACT
* * *
97178574 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATATCTGGGATATGACATCAGTGTGATATGTGATACT
* * * * *
97178620 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACT
1 GTATAAGACCATATCTGGGATATGACATC-A-GTGTGATATGTGA-TACT
* *
97178670 -TGTAAGACCATAGT-TGGGCTATGACATC
1 GTATAAGACCATA-TCTGGGATATGACATC
97178698 GATATATGAA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.25
47 41 0.39
48 11 0.10
49 27 0.26
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGACATCAGTGTGATATGTGATACT
Found at i:97178688 original size:49 final size:48
Alignment explanation
Indices: 97178577--97178702 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 48
97178567 TGCTACTGTA
* *
97178577 TAAGACCATA-TCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGT-TGGGCTATGGCATCGATATGAGATATGTGATTCGTG
* * *
97178623 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACTTG
1 TAAGACCATAGTTGGGCTATGGCATCGATATGAGATATGTGATT-CGTG
*
97178672 TAAGACCATAGTTGGGCTATGACATCGATAT
1 TAAGACCATAGTTGGGCTATGGCATCGATAT
97178703 ATGAAGATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 23 0.33
47 1 0.01
48 13 0.19
49 32 0.46
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (48 bp):
TAAGACCATAGTTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
Found at i:97182474 original size:21 final size:20
Alignment explanation
Indices: 97182431--97182475 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
97182421 GTATATTGGA
*
97182431 CAAAGTATCGATACTTTCCT
1 CAAAGTATCGATACTTTCAT
* *
97182451 CAAAGTATTGGTACTTTTCAT
1 CAAAGTATCGATAC-TTTCAT
97182472 CAAA
1 CAAA
97182476 CATCGATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
CAAAGTATCGATACTTTCAT
Found at i:97186168 original size:16 final size:17
Alignment explanation
Indices: 97186143--97186177 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
97186133 TATTTATGAA
97186143 TTTTATATTTATATTAT
1 TTTTATATTTATATTAT
97186160 TTTTA-ATTTATATTAT
1 TTTTATATTTATATTAT
97186176 TT
1 TT
97186178 ATGAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTATATTAT
Found at i:97196655 original size:8 final size:8
Alignment explanation
Indices: 97196644--97196670 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
97196634 AATTGTACTT
97196644 AAATTTTA
1 AAATTTTA
97196652 AAATTTTA
1 AAATTTTA
97196660 AAATTTTA
1 AAATTTTA
97196668 AAA
1 AAA
97196671 GTAAAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTTA
Found at i:97198782 original size:26 final size:27
Alignment explanation
Indices: 97198736--97198794 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
97198726 GTTGTTGATT
* *
97198736 TTTATTTTCTTTTTCTTTTTATTATAA
1 TTTATTTTCGTTTTATTTTTATTATAA
* *
97198763 TTTATTTT-GTTTTATTTTTATTTTTA
1 TTTATTTTCGTTTTATTTTTATTATAA
97198789 TTTATT
1 TTTATT
97198795 GTGAATTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTATTTTCGTTTTATTTTTATTATAA
Found at i:97207540 original size:101 final size:100
Alignment explanation
Indices: 97207365--97207816 Score: 367
Period size: 101 Copynumber: 4.5 Consensus size: 100
97207355 ATACAAAGTT
* * * *
97207365 TAAAATTATCTATAGTCCCTCCCTAACCCTTAAATAAGAGGATAATATGCTTCAACGCACTCGAA
1 TAAAACTATCTATAGTCCCTCCC-AACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACTCGAA
* * * *
97207430 CCCATGTCCTCTTGCATTGGCAACAATACTCTTGCC
65 ACCACGTCCTCCTGCATTGGCAACAATACTCATGCC
* * * *
97207466 TAAAACTATCTATAGCCCCTCCTCAACCTTTAAATAGGAGGATAATGTGCTTTAGTGCACTCGAA
1 TAAAACTATCTATAGTCCCTCC-CAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACTCGAA
** * *
97207531 ATTATGTCCTCCTGCATTGGTAACAA-AGCTCATGCC
65 ACCACGTCCTCCTGCATTGGCAACAATA-CTCATGCC
* * * * * * *
97207567 CAAAACTACCTATAGTACCTCCCCAACCCTTAAATAAGAGGATAATGTGTTTTAGTGCACTC-AA
1 TAAAACTATCTATAGTCCCT-CCCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACTCGAA
* * * *
97207631 ACTCACATCCTCCTACATTGGCAACAATGCT--TGGAAC
65 AC-CACGTCCTCCTGCATTGGCAACAATACTCAT-G-CC
* * * ** *
97207668 T-ACACATAACCCATTAACCCCTCCTCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACAC
1 TAAAAC-T-ATCTA-TAGTCCCTCC-CAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACTC
* * * **
97207732 GAACCCACGTCTTCTTGCATTGGCAACAATGTTCATGCC
62 GAAACCACGTCCTCCTGCATTGGCAACAATACTCATGCC
* * * *
97207771 TAGAACTATCCATAGTCCATCCCTAA-CTCTTAAATAGGAGGATAAT
1 TAAAACTATCTATAGTCCCTCCC-AACCT-TTAAATAAGAGGATAAT
97207817 ATATTTCATC
Statistics
Matches: 280, Mismatches: 54, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
99 1 0.00
100 11 0.04
101 183 0.65
102 13 0.05
103 65 0.23
104 6 0.02
105 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (100 bp):
TAAAACTATCTATAGTCCCTCCCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACTCGAAA
CCACGTCCTCCTGCATTGGCAACAATACTCATGCC
Found at i:97207848 original size:204 final size:204
Alignment explanation
Indices: 97207481--97207864 Score: 463
Period size: 204 Copynumber: 1.9 Consensus size: 204
97207471 CTATCTATAG
* * * * ** *
97207481 CCCCTCCTCAACCTTTAAATAGGAGGATAATGTGCTTTAGTGCACTCGAAATTATGTCCTCCTGC
1 CCCCTCCTCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACACGAAACCACGTCCTCCTGC
*
97207546 ATTGGTAACAAAGCTCATGCCCAAAACTACCTATAGTACCTCCCCAACCCTTAAATAAGAGGATA
66 ATTGGCAACAAAGCTCATGCCCAAAACTACCTATAGTACCTCCCCAACCCTTAAATAAGAGGATA
* * * * *
97207611 ATGTGTTTTAGTGCACTCAAACTCACATCCTCCTACATTGGCAACAATGCTTGGAACTACACATA
131 ATATATTTCAGTGCACTCAAACTCACATCCTCCTACACTGACAACAATGCTTGGAACTACACATA
97207676 ACCCATTAA
196 ACCCATTAA
* * *
97207685 CCCCTCCTCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACACGAACCCACGTCTTCTTGC
1 CCCCTCCTCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACACGAAACCACGTCCTCCTGC
* * * * * * *
97207750 ATTGGCAACAATGTTCATGCCTAGAACTATCC-ATAGT-CCATCCCTAACTCTTAAATAGGAGGA
66 ATTGGCAACAAAGCTCATGCCCAAAACTA-CCTATAGTACC-TCCCCAACCCTTAAATAAGAGGA
* *
97207813 TAATATATTTCA-T-CACATTCGAAC-CTACGTCCTCCTACACTGACAACAATGC
129 TAATATATTTCAGTGCAC--TCAAACTC-ACATCCTCCTACACTGACAACAATGC
97207865 CAATGCTAAT
Statistics
Matches: 150, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
202 3 0.02
203 4 0.03
204 141 0.94
205 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (204 bp):
CCCCTCCTCAACCTTTAAATAAGAGGATAATGTGCTTCAGCGCACACGAAACCACGTCCTCCTGC
ATTGGCAACAAAGCTCATGCCCAAAACTACCTATAGTACCTCCCCAACCCTTAAATAAGAGGATA
ATATATTTCAGTGCACTCAAACTCACATCCTCCTACACTGACAACAATGCTTGGAACTACACATA
ACCCATTAA
Found at i:97210878 original size:2 final size:2
Alignment explanation
Indices: 97210871--97210913 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
97210861 ATAAAAAGTT
97210871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97210913 T
1 T
97210914 TCTCTTTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97211534 original size:17 final size:15
Alignment explanation
Indices: 97211514--97211551 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
97211504 AACTACAAAT
97211514 ATAATTGTACTATTTTA
1 ATAATT-TA-TATTTTA
97211531 ATAATTTATATTTTA
1 ATAATTTATATTTTA
97211546 A-AATTT
1 ATAATTT
97211552 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 2 0.10
17 6 0.29
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
ATAATTTATATTTTA
Found at i:97227163 original size:145 final size:143
Alignment explanation
Indices: 97226903--97227318 Score: 602
Period size: 145 Copynumber: 2.9 Consensus size: 143
97226893 GAAATTTAGT
* * * *
97226903 CCTTAATCTCAGTTCAGTCGGTATTATTGTTATTACAGTAA-T-GAGGACGGGGGTTCAGATACA
1 CCTTAATCTCAGTTCAGTC-GCATTATTGCTATTACAATAATTAGAGGACGTGGGTTCAGATACA
* * *
97226966 CTTAACTGTTTTTACTTTCAATTTAAAGGGTGGGAATGGGTTACGGGCAATGATGTTTAAACCAG
65 CTTAACTGTTTTTTCTTTCAATTTAAAGGATGGGAATGGGTTATGGGCAATGATGTTTAAACCAG
*
97227031 ATACACTTTCTGTA
130 ATACACTCTCTGTA
* *
97227045 CCTTAATCTCAATTCAGTCAGCATTATTGCTATTACAATAATTAGAAGGACGTGGGTTCAGATGC
1 CCTTAATCTCAGTTCAGTC-GCATTATTGCTATTACAATAATTAG-AGGACGTGGGTTCAGATAC
* *
97227110 ACTTAACTATTTTTTCTTTCAATTTAAAGGATGGGAATGGGTTATAGGCAATGATGTTTAAACCA
64 ACTTAACTGTTTTTTCTTTCAATTTAAAGGATGGGAATGGGTTATGGGCAATGATGTTTAAACCA
97227175 GATACACTCTCTGTA
129 GATACACTCTCTGTA
* *
97227190 CCTTAATCTCAGTTTAGTCGACATTATTGCTATTACAATAATTAGGAGGACGTGGGTTCATATAC
1 CCTTAATCTCAGTTCAGTCG-CATTATTGCTATTACAATAATTA-GAGGACGTGGGTTCAGATAC
* * * * *
97227255 GCTTAAGTGCTTTTTCTTTCAATTTAAAGGATGAGAATGGGTTATGGGCAATAATGTTTAAACC
64 ACTTAACTGTTTTTTCTTTCAATTTAAAGGATGGGAATGGGTTATGGGCAATGATGTTTAAACC
97227319 TGGTTAAAAA
Statistics
Matches: 245, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
142 36 0.15
143 1 0.00
144 2 0.01
145 205 0.84
146 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (143 bp):
CCTTAATCTCAGTTCAGTCGCATTATTGCTATTACAATAATTAGAGGACGTGGGTTCAGATACAC
TTAACTGTTTTTTCTTTCAATTTAAAGGATGGGAATGGGTTATGGGCAATGATGTTTAAACCAGA
TACACTCTCTGTA
Found at i:97229131 original size:97 final size:97
Alignment explanation
Indices: 97228963--97229148 Score: 250
Period size: 97 Copynumber: 1.9 Consensus size: 97
97228953 ATACGTGGAC
* * * *
97228963 ATATTATGTTTAAAGGGAGTTGTCCAAATAAACATCATTTGATTATCAAACTAATTACGAGTGTT
1 ATATTATGTCTAAAGGGAGTTGTCCAAATAAACATCATTCGACTATCAAACCAATTACGAGTGTT
97229028 CTTTTTATTCTCGAATGTTGATATACATGCAT
66 CTTTTTATTCTCGAATGTTGATATACATGCAT
* * * *
97229060 ATATTATGTCTAAAGGGAGTTGTCTAAATGAACATCATTCGACTATTAGACCAATTACGAG-GAT
1 ATATTATGTCTAAAGGGAGTTGTCCAAATAAACATCATTCGACTATCAAACCAATTACGAGTG-T
* *
97229124 T-TGTTTTATTTTTGAATGTTGATAT
65 TCT-TTTTATTCTCGAATGTTGATAT
97229149 TAACAGCGAG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 2 0.03
97 75 0.97
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (97 bp):
ATATTATGTCTAAAGGGAGTTGTCCAAATAAACATCATTCGACTATCAAACCAATTACGAGTGTT
CTTTTTATTCTCGAATGTTGATATACATGCAT
Found at i:97235052 original size:10 final size:9
Alignment explanation
Indices: 97235008--97235058 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
97234998 TTGTCCATTT
97235008 TTTATAATA
1 TTTATAATA
97235017 TTTATAATA
1 TTTATAATA
**
97235026 TTTTATTTTA
1 -TTTATAATA
97235036 TTT-TAATA
1 TTTATAATA
97235044 TTTAATAAT-
1 TTT-ATAATA
97235053 TTTATA
1 TTTATA
97235059 CATTTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 9 0.26
9 15 0.43
10 11 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTATAATA
Found at i:97237752 original size:46 final size:44
Alignment explanation
Indices: 97237648--97237755 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
97237638 TGTCTTTGAC
** * * *
97237648 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
97237692 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
97237738 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97237756 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:97239426 original size:34 final size:34
Alignment explanation
Indices: 97239387--97239455 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
97239377 TTAAAAAATT
97239387 CATCCATTTATACTGCTAAAAATTTGTCCATATA
1 CATCCATTTATACTGCTAAAAATTTGTCCATATA
*
97239421 CATCCATTTATATTGCTAAAAATTTGTCCATATA
1 CATCCATTTATACTGCTAAAAATTTGTCCATATA
97239455 C
1 C
97239456 GTCATCATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (34 bp):
CATCCATTTATACTGCTAAAAATTTGTCCATATA
Found at i:97240431 original size:22 final size:23
Alignment explanation
Indices: 97240406--97240460 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
97240396 GAATATTTAC
97240406 TATTTTTTAAAA-GATAAATAAA
1 TATTTTTTAAAAGGATAAATAAA
* *
97240428 TA-TTTTTAAAAGGATAATTAGA
1 TATTTTTTAAAAGGATAAATAAA
97240450 T-TTTTTTAAAA
1 TATTTTTTAAAA
97240461 ATTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (23 bp):
TATTTTTTAAAAGGATAAATAAA
Found at i:97257513 original size:2 final size:2
Alignment explanation
Indices: 97257506--97257553 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
97257496 TAATTAAGTA
97257506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97257548 AT AT AT
1 AT AT AT
97257554 GTACAATGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97258263 original size:20 final size:21
Alignment explanation
Indices: 97258240--97258281 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
97258230 CCCTTAAACA
*
97258240 TTAAACTTGAAATTT-GAGAT
1 TTAAAATTGAAATTTAGAGAT
*
97258260 TTAAAATTTAAATTTAGAGAT
1 TTAAAATTGAAATTTAGAGAT
97258281 T
1 T
97258282 AAGTTGGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (21 bp):
TTAAAATTGAAATTTAGAGAT
Found at i:97258701 original size:20 final size:21
Alignment explanation
Indices: 97258676--97258715 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97258666 ATATTTTAGT
*
97258676 AATAATTA-AATTAAAAAATA
1 AATAATTATAAATAAAAAATA
97258696 AATAATTATAAATAAAAAAT
1 AATAATTATAAATAAAAAAT
97258716 TCATACCCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATTATAAATAAAAAATA
Found at i:97259511 original size:15 final size:14
Alignment explanation
Indices: 97259487--97259520 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
97259477 ATGAGACAAT
97259487 ATATTCATAATTAAA
1 ATATTCATAATT-AA
*
97259502 ATATTTATAATTAA
1 ATATTCATAATTAA
97259516 ATATT
1 ATATT
97259521 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTCATAATTAA
Found at i:97261737 original size:3 final size:3
Alignment explanation
Indices: 97261729--97261794 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
97261719 TAGAAGAGTC
* * *
97261729 TGA TGA TGA AGA TGA TGA AGA TGA TGA TGA -GTC TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG-A TGA TGA TGA TGA
97261774 TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA
97261795 AACAATGGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.96
4 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.33, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:97262414 original size:28 final size:28
Alignment explanation
Indices: 97262383--97262438 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
97262373 TATAATGAAA
97262383 TAATTGCCATAAGTAGATGATGATGATG
1 TAATTGCCATAAGTAGATGATGATGATG
97262411 TAATTGCCATAAGTAGATGATGATGATG
1 TAATTGCCATAAGTAGATGATGATGATG
97262439 AGTTTGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (28 bp):
TAATTGCCATAAGTAGATGATGATGATG
Found at i:97262489 original size:14 final size:16
Alignment explanation
Indices: 97262470--97262509 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
97262460 ATTATTGAAC
97262470 TATTTAAAAATT-T-T
1 TATTTAAAAATTATAT
97262484 TATTTAAATAATTATAT
1 TATTTAAA-AATTATAT
97262501 T-TTTAAAAA
1 TATTTAAAAA
97262510 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
16 7 0.30
17 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTAAAAATTATAT
Found at i:97268457 original size:47 final size:47
Alignment explanation
Indices: 97268404--97268498 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
97268394 GTAATTATAG
97268404 ATAGTAATTAATGGGCTATAGAAGGATGAAATTGAGATTGGTTTCGA
1 ATAGTAATTAATGGGCTATAGAAGGATGAAATTGAGATTGGTTTCGA
97268451 ATAGTAATTAATGGGCTATAGAAGGATGAAATTGAGATTGGTTTCGA
1 ATAGTAATTAATGGGCTATAGAAGGATGAAATTGAGATTGGTTTCGA
97268498 A
1 A
97268499 ACTGAAGCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (47 bp):
ATAGTAATTAATGGGCTATAGAAGGATGAAATTGAGATTGGTTTCGA
Found at i:97271716 original size:8 final size:8
Alignment explanation
Indices: 97271709--97271740 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
97271699 TGTATACATT
*
97271709 CAACCATT
1 CAACCATC
97271717 CAACCATC
1 CAACCATC
97271725 CAACCATC
1 CAACCATC
97271733 CAACCATC
1 CAACCATC
97271741 ACATGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (8 bp):
CAACCATC
Found at i:97272593 original size:2 final size:2
Alignment explanation
Indices: 97272588--97272616 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97272578 GAAAAAAAAA
97272588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97272617 AAATAAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:97276337 original size:17 final size:18
Alignment explanation
Indices: 97276317--97276351 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97276307 GCTAAAGGTC
*
97276317 ATAAAATTTTA-AAAATA
1 ATAAAATATTATAAAATA
97276334 ATAAAATATTATAAAATA
1 ATAAAATATTATAAAATA
97276352 TTATAAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATATTATAAAATA
Found at i:97276349 original size:10 final size:10
Alignment explanation
Indices: 97276317--97276358 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
97276307 GCTAAAGGTC
97276317 ATAAAAT-TT
1 ATAAAATATT
*
97276326 -TAAAA-ATA
1 ATAAAATATT
97276334 ATAAAATATT
1 ATAAAATATT
97276344 ATAAAATATT
1 ATAAAATATT
97276354 ATAAA
1 ATAAA
97276359 GGTCATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 6 0.21
9 5 0.18
10 17 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATATT
Found at i:97276530 original size:7 final size:7
Alignment explanation
Indices: 97276503--97276542 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
97276493 AATACATACA
*
97276503 AAAATTA
1 AAAATTT
97276510 AAGAATTT
1 AA-AATTT
97276518 -AAATTT
1 AAAATTT
97276524 AAAATTT
1 AAAATTT
97276531 AAAATTT
1 AAAATTT
97276538 AAAAT
1 AAAAT
97276543 AATAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 5 0.17
7 21 0.70
8 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:97280985 original size:17 final size:18
Alignment explanation
Indices: 97280932--97281029 Score: 119
Period size: 17 Copynumber: 5.5 Consensus size: 18
97280922 AATCATATCT
*
97280932 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
97280951 TCTATGATTGCAATCATA
1 TCTAAGATTGCTATCATA
97280969 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
* *
97280986 TCTAATATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
97281004 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
97281021 TCTAAGATT
1 TCTAAGATT
97281030 ACATATCATT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
17 29 0.43
18 29 0.43
19 9 0.13
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:97280996 original size:35 final size:36
Alignment explanation
Indices: 97280932--97281038 Score: 148
Period size: 35 Copynumber: 3.0 Consensus size: 36
97280922 AATCATATCT
97280932 TCTAAGATTGTATATCATATCT-ATGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAATGATTGCAATCATA
97280969 TCTAAGATTGTATCATATCTAAT-ATTGCAATCATA
1 TCTAAGATTGTATCATATCTAATGATTGCAATCATA
* *
97281004 TTTAAGATTGTATCATATCTAA-GATTACATATCAT
1 TCTAAGATTGTATCATATCTAATGATTGCA-ATCAT
97281039 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
35 48 0.74
36 7 0.11
37 10 0.15
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.41
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAATGATTGCAATCATA
Found at i:97283105 original size:21 final size:21
Alignment explanation
Indices: 97283081--97283120 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
97283071 CTTAACCCTT
* *
97283081 AACCCCTAAGCCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
*
97283102 AACCCTTAAACCATAAACC
1 AACCCCTAAACCATAAACC
97283121 ATAAACCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.42, G:0.03, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:97283111 original size:14 final size:15
Alignment explanation
Indices: 97283073--97283113 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
97283063 ACCTAACACT
97283073 TAACCCTT-AACCCC
1 TAACCCTTAAACCCC
*
97283087 TAAGCCTTAAACCCC
1 TAACCCTTAAACCCC
97283102 -AACCCTTAAACC
1 TAACCCTTAAACC
97283114 ATAAACCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.34, C:0.44, G:0.02, T:0.20
Consensus pattern (15 bp):
TAACCCTTAAACCCC
Found at i:97283120 original size:7 final size:7
Alignment explanation
Indices: 97283108--97283161 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
97283098 CCCCAACCCT
97283108 TAAACCA
1 TAAACCA
97283115 TAAACCA
1 TAAACCA
97283122 TAAACCA
1 TAAACCA
* *
97283129 TAATCCC
1 TAAACCA
97283136 TAAACCCA
1 TAAA-CCA
*
97283144 TAATCCA
1 TAAACCA
*
97283151 TAAACCT
1 TAAACCA
97283158 TAAA
1 TAAA
97283162 ATAATAACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:97283125 original size:28 final size:28
Alignment explanation
Indices: 97283074--97283156 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
97283064 CCTAACACTT
* * * * *
97283074 AACCCTTAACCCCTAAGCCTTAAACCCC
1 AACCCTTAAACCATAAACCATAAACCAC
*
97283102 AACCCTTAAACCATAAACCATAAACCAT
1 AACCCTTAAACCATAAACCATAAACCAC
*
97283130 AATCCC-TAAACCCATAATCCATAAACC
1 AA-CCCTTAAA-CCATAAACCATAAACC
97283157 TTAAAATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 28 0.61
29 18 0.39
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.18
Consensus pattern (28 bp):
AACCCTTAAACCATAAACCATAAACCAC
Found at i:97283147 original size:15 final size:14
Alignment explanation
Indices: 97283108--97283156 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
97283098 CCCCAACCCT
*
97283108 TAAACCATAAACCA
1 TAAACCATAATCCA
*
97283122 TAAACCATAATCCC
1 TAAACCATAATCCA
97283136 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
97283151 TAAACC
1 TAAACC
97283157 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:97283209 original size:14 final size:14
Alignment explanation
Indices: 97283180--97283224 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
97283170 TCATACACTT
*
97283180 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
97283194 TATACCCTAAATCA
1 TAAACCCTAAACCA
*
97283208 TAAACCCTAAACTA
1 TAAACCCTAAACCA
97283222 TAA
1 TAA
97283225 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:97283360 original size:22 final size:21
Alignment explanation
Indices: 97283318--97283365 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
97283308 ACTAATTAAT
* *
97283318 CTAAGCCCTAAACTCTTAATCC
1 CTAAACCCTAAACTCTAAAT-C
97283340 CTAAACCCTAAA-TCATAAATC
1 CTAAACCCTAAACTC-TAAATC
97283361 CTAAA
1 CTAAA
97283366 ACATGAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.25
Consensus pattern (21 bp):
CTAAACCCTAAACTCTAAATC
Found at i:97283430 original size:25 final size:25
Alignment explanation
Indices: 97283402--97283449 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
97283392 AACACTTAAA
97283402 CCTTAAACCACAA-CCCTTAAACCAC
1 CCTTAAACCACAATCCC-TAAACCAC
*
97283427 CCTTAAACCATAATCCCTAAACC
1 CCTTAAACCACAATCCCTAAACC
97283450 CATAATCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAATCCCTAAACCAC
Found at i:97283452 original size:15 final size:15
Alignment explanation
Indices: 97283430--97283464 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
97283420 AAACCACCCT
*
97283430 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
97283444 TAAACCCATAATCCA
1 TAAACCCATAATCCA
97283459 TAAACC
1 TAAACC
97283465 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:97283469 original size:22 final size:21
Alignment explanation
Indices: 97283432--97283515 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
97283422 ACCACCCTTA
* *
97283432 AACCATAATCCCTAAACCCAT
1 AACCATAAACCTTAAACCCAT
***
97283453 AATCCATAAACCTTAAAATAAT
1 AA-CCATAAACCTTAAACCCAT
* *
97283475 AACTCATAAACATTAAACCCTT
1 AAC-CATAAACCTTAAACCCAT
* *
97283497 AACCATATACCGTAAACCC
1 AACCATAAACCTTAAACCC
97283516 TAAACTATAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
21 16 0.33
22 32 0.67
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
AACCATAAACCTTAAACCCAT
Found at i:97283743 original size:40 final size:40
Alignment explanation
Indices: 97283678--97283782 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 40
97283668 AATTTTTTGT
*
97283678 GGCGTTTTTCAAAAAA-AGCCGCTAAAGATCGA-ACAT-TAGC
1 GGCGTTTTT-AAAAAAGCGCCGCTAAAGAT--ATACATATAGC
* *
97283718 GGCGTTTATT-AAAAAGCGCCTCTAAAGGTATACATATAGC
1 GGCGTTT-TTAAAAAAGCGCCGCTAAAGATATACATATAGC
97283758 GGCGTTTTTAAAAAAGCGCCGCTAA
1 GGCGTTTTTAAAAAAGCGCCGCTAA
97283783 TACTTGATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
38 1 0.02
39 11 0.20
40 42 0.75
41 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (40 bp):
GGCGTTTTTAAAAAAGCGCCGCTAAAGATATACATATAGC
Found at i:97286905 original size:14 final size:14
Alignment explanation
Indices: 97286871--97286923 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
97286861 GTGCAGGTTT
*
97286871 CAAGGTTCAGAGTC
1 CAAGGTCCAGAGTC
* *
97286885 TAGGGTCCAGAGTC
1 CAAGGTCCAGAGTC
97286899 CAAGGTCCA-AGGTC
1 CAAGGTCCAGA-GTC
97286913 CAAGGTCCAGA
1 CAAGGTCCAGA
97286924 TAAACAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.17
Consensus pattern (14 bp):
CAAGGTCCAGAGTC
Found at i:97286906 original size:7 final size:7
Alignment explanation
Indices: 97286896--97286921 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
97286886 AGGGTCCAGA
97286896 GTCCAAG
1 GTCCAAG
97286903 GTCCAAG
1 GTCCAAG
97286910 GTCCAAG
1 GTCCAAG
97286917 GTCCA
1 GTCCA
97286922 GATAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (7 bp):
GTCCAAG
Found at i:97293777 original size:93 final size:93
Alignment explanation
Indices: 97293670--97293840 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
97293660 GCCCCGAAGT
* * *
97293670 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCAA
97293735 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
97293763 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCAA
97293828 CGAGTTCGGATGC
66 CGAGTTCGGATGC
97293841 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:97293837 original size:46 final size:46
Alignment explanation
Indices: 97293666--97293837 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
97293656 ACCCGCCCCG
* * *
97293666 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
97293712 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
97293760 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
97293805 AAGTGAACTCCGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
97293838 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:97300378 original size:17 final size:18
Alignment explanation
Indices: 97300341--97300379 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
97300331 TGCAAAACAA
97300341 AAGAAAAAAGAGCAAGAG
1 AAGAAAAAAGAGCAAGAG
* *
97300359 AAGAAACAAGAG-AGGAG
1 AAGAAAAAAGAGCAAGAG
97300376 AAGA
1 AAGA
97300380 GCGCGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAGAGCAAGAG
Found at i:97301991 original size:132 final size:131
Alignment explanation
Indices: 97301750--97301992 Score: 344
Period size: 132 Copynumber: 1.8 Consensus size: 131
97301740 AAATGGAGAC
* * * * * *
97301750 AATGTCGATGTTTGGCAATTCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCTCGTTTGC
1 AATGTCGATGTTTAGCAATTCGAGGAATAGTACCCTACTGTGCTGGGTTGCAATCTCCCATTTGC
* *
97301815 TCAAAATAATCGAATATCTCTTTAGAATTTCATTCATGTTTTCTAAAAACTTTTTAAAAGGAAGG
66 TCAAAATAATCGAATATCCCTTCAGAATTTCATTCATGTTTTCTAAAAACTTTTTAAAAGGAAGG
97301880 A
131 A
* *
97301881 AATGTTCGATGTTTAGCAATTCGGGGAATAGTACCTTA-TCGTGCTGGGTTGCAATCTCCCATTT
1 AATG-TCGATGTTTAGCAATTCGAGGAATAGTACCCTACT-GTGCTGGGTTGCAATCTCCCATTT
* * *
97301945 GTTCAAAATAATCGAATATCCCTTCGGAATTTCATTCGTGTTTTCTAA
64 GCTCAAAATAATCGAATATCCCTTCAGAATTTCATTCATGTTTTCTAA
97301993 GGCGAGACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
131 5 0.05
132 92 0.95
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (131 bp):
AATGTCGATGTTTAGCAATTCGAGGAATAGTACCCTACTGTGCTGGGTTGCAATCTCCCATTTGC
TCAAAATAATCGAATATCCCTTCAGAATTTCATTCATGTTTTCTAAAAACTTTTTAAAAGGAAGG
A
Found at i:97302564 original size:3 final size:3
Alignment explanation
Indices: 97302556--97302584 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
97302546 CAATTATAAT
97302556 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
97302585 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:97302589 original size:3 final size:3
Alignment explanation
Indices: 97302583--97302633 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
97302573 CTACTACTAC
*
97302583 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
97302631 TAT
1 TAT
97302634 ACTATTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:97306146 original size:31 final size:31
Alignment explanation
Indices: 97306089--97306173 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
97306079 GTACTTAAAA
*
97306089 GTTTTTTA-TCC-AATTAAGTACCTGAACTTG
1 GTTTTTTAGTCCAAATT-AGTACTTGAACTTG
* *
97306119 GTTTTTTAGTTCAAATTGGTACTTGAACTTG
1 GTTTTTTAGTCCAAATTAGTACTTGAACTTG
97306150 GTTTTTTAGTCCAAATTAGTACTT
1 GTTTTTTAGTCCAAATTAGTACTT
97306174 ACAGTAAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 8 0.17
31 36 0.75
32 4 0.08
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (31 bp):
GTTTTTTAGTCCAAATTAGTACTTGAACTTG
Found at i:97309252 original size:21 final size:21
Alignment explanation
Indices: 97309204--97309243 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
97309194 TATCTGTAAG
97309204 GGAAAAAACCCAACTTTTTTA
1 GGAAAAAACCCAACTTTTTTA
97309225 GGAAAAAACCCAACTTTTT
1 GGAAAAAACCCAACTTTTT
97309244 GGGTAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
GGAAAAAACCCAACTTTTTTA
Found at i:97310955 original size:111 final size:111
Alignment explanation
Indices: 97310761--97310982 Score: 336
Period size: 111 Copynumber: 2.0 Consensus size: 111
97310751 CTAAAATAAA
* *
97310761 TCAAGACACATCATAACACCATTCTACTTAAACTTATGACATTAGATCACTTGTCATTTATCTCT
1 TCAAGACACATCATAACACCATTCTACTTAAACCTATGACACTAGATCACTTGTCATTTATCTCT
*
97310826 AATCCACCAATAGTGAATCAACACGTGGCACCTCGAGACGGAAGAC
66 AATCCACCAATAGTGAATCAACACGTGACACCTCGAGACGGAAGAC
* * * * *
97310872 TCAAGGCACGTCATAACACCATTTTACTTAAGCCTATGACACTAGATCACTTGTCATTTATCTTT
1 TCAAGACACATCATAACACCATTCTACTTAAACCTATGACACTAGATCACTTGTCATTTATCTCT
* ** *
97310937 AGTTTACTAATAGTGAATCAACACGTGACACCTCGAGACGGAAGAC
66 AATCCACCAATAGTGAATCAACACGTGACACCTCGAGACGGAAGAC
97310983 AACATGTAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (111 bp):
TCAAGACACATCATAACACCATTCTACTTAAACCTATGACACTAGATCACTTGTCATTTATCTCT
AATCCACCAATAGTGAATCAACACGTGACACCTCGAGACGGAAGAC
Found at i:97314411 original size:26 final size:26
Alignment explanation
Indices: 97314343--97314416 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
97314333 TTTCTCACCC
* *
97314343 CAATTTTATCCC-AGTAAAATTTTGA
1 CAATTTTACCCCTAATAAAATTTTGA
* ** *
97314368 CAATTTTAGCTTTGATAAAATTTTGA
1 CAATTTTACCCCTAATAAAATTTTGA
*
97314394 CGATTTTACCCCTAATAAAATTT
1 CAATTTTACCCCTAATAAAATTT
97314417 CTACAAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 9 0.24
26 29 0.76
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (26 bp):
CAATTTTACCCCTAATAAAATTTTGA
Found at i:97316186 original size:21 final size:21
Alignment explanation
Indices: 97316162--97316205 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
97316152 ACAAATACAT
* *
97316162 AATGAACATATTACGTGCTAA
1 AATGAACAAATTAAGTGCTAA
*
97316183 AATGAACAAATTAAGTGTTAA
1 AATGAACAAATTAAGTGCTAA
97316204 AA
1 AA
97316206 CTCTCATATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (21 bp):
AATGAACAAATTAAGTGCTAA
Found at i:97334913 original size:21 final size:20
Alignment explanation
Indices: 97334886--97334929 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
97334876 TTCTTTTTAC
* *
97334886 TAAAAAAATTAAAATTAAAT
1 TAAAAAAATTAAAAATAAAA
97334906 TAAAAAAATTAAAAATAAAA
1 TAAAAAAATTAAAAATAAAA
97334926 TAAA
1 TAAA
97334930 TTTTCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAAAAAATTAAAAATAAAA
Found at i:97334914 original size:9 final size:9
Alignment explanation
Indices: 97334886--97334920 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
97334876 TTCTTTTTAC
97334886 TAAAAAAAT
1 TAAAAAAAT
97334895 TAAAATTAAAT
1 TAAAA--AAAT
97334906 TAAAAAAAT
1 TAAAAAAAT
97334915 TAAAAA
1 TAAAAA
97334921 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 15 0.62
11 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:97335122 original size:21 final size:21
Alignment explanation
Indices: 97335093--97335132 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
97335083 AACACTTCTT
*
97335093 TTTTCTATTTATGA-TTCATAA
1 TTTTATATTTA-GAGTTCATAA
97335114 TTTTATATTTAGAGTTCAT
1 TTTTATATTTAGAGTTCAT
97335133 GGTTGTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTATATTTAGAGTTCATAA
Found at i:97339351 original size:3 final size:3
Alignment explanation
Indices: 97339343--97339390 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
97339333 AGCAACACTT
97339343 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
97339391 ATAGAGTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:97343769 original size:30 final size:30
Alignment explanation
Indices: 97343684--97343773 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 30
97343674 ATGTAATAAC
97343684 TTCTTATATGTTTTATAAA-TTTAAAATTTAA
1 TTCTTATAT-TTTT-TAAATTTTAAAATTTAA
*
97343715 TCCTTATA-TTTTT--ATTTTCAAAAATTTAA
1 TTCTTATATTTTTTAAATTTT--AAAATTTAA
*
97343744 TTCTTTTATTTTTTAAATTTTAAAATTTAA
1 TTCTTATATTTTTTAAATTTTAAAATTTAA
97343774 GTTCAATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 1 0.02
29 19 0.38
30 14 0.28
31 7 0.14
32 5 0.10
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.58
Consensus pattern (30 bp):
TTCTTATATTTTTTAAATTTTAAAATTTAA
Found at i:97345363 original size:8 final size:8
Alignment explanation
Indices: 97345352--97345377 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
97345342 TTTTAGTTCC
97345352 TATGATTA
1 TATGATTA
97345360 TATGATTA
1 TATGATTA
97345368 TATGATTA
1 TATGATTA
97345376 TA
1 TA
97345378 GGCTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATGATTA
Found at i:97350383 original size:13 final size:14
Alignment explanation
Indices: 97350359--97350389 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
97350349 ATCATTATTA
97350359 ATATTAATATATGT
1 ATATTAATATATGT
97350373 ATATT-ATATATGT
1 ATATTAATATATGT
97350386 ATAT
1 ATAT
97350390 ATTCGTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:97350622 original size:20 final size:22
Alignment explanation
Indices: 97350588--97350627 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
97350578 TTCTTAATAT
*
97350588 TATATTTATATATATTATTATA
1 TATATTTATATATATCATTATA
97350610 TATATTTA-A-ATATCATTA
1 TATATTTATATATATCATTA
97350628 GTCATATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTTATATATATCATTATA
Found at i:97354070 original size:17 final size:16
Alignment explanation
Indices: 97354050--97354092 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
97354040 TTATTTTATT
97354050 AATTTAAAATTATATAA
1 AATTTAAAATTATA-AA
*
97354067 AATTTAAAAGTATAAA
1 AATTTAAAATTATAAA
97354083 AA-TTAAAATT
1 AATTTAAAATT
97354093 TTCATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTTAAAATTATAAA
Found at i:97354611 original size:18 final size:18
Alignment explanation
Indices: 97354571--97354612 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
97354561 AATACAATTG
*
97354571 AATAAATTATTAAAAAAT
1 AATAAATTATTAAAAAAA
*
97354589 TATAAA-TATTAAAATAAA
1 AATAAATTATTAAAA-AAA
97354607 AATAAA
1 AATAAA
97354613 AATAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAAATTATTAAAAAAA
Found at i:97358083 original size:31 final size:31
Alignment explanation
Indices: 97358048--97358115 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
97358038 TATAAAATAC
97358048 TCATTCAAA-TATTAAAAAAATTTTATTTAAA
1 TCATT-AAATTATTAAAAAAATTTTATTTAAA
*
97358079 TCATTAAATTATTCAAAAAATTTTATTTAAA
1 TCATTAAATTATTAAAAAAATTTTATTTAAA
*
97358110 TTATTA
1 TCATTA
97358116 GACTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (31 bp):
TCATTAAATTATTAAAAAAATTTTATTTAAA
Found at i:97362794 original size:19 final size:19
Alignment explanation
Indices: 97362770--97362808 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
97362760 AAGTCAATTA
97362770 TAGATTTAAAGACTAACGC
1 TAGATTTAAAGACTAACGC
97362789 TAGATTTAAAGACTAACGC
1 TAGATTTAAAGACTAACGC
97362808 T
1 T
97362809 TGCGTTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
TAGATTTAAAGACTAACGC
Found at i:97363552 original size:16 final size:16
Alignment explanation
Indices: 97363533--97363572 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
97363523 TCCAAACCTG
*
97363533 AAAAAATTCGAGTCTA
1 AAAAAATTCAAGTCTA
*
97363549 AAAAAGTTCAAGTCTA
1 AAAAAATTCAAGTCTA
*
97363565 AGAAAATT
1 AAAAAATT
97363573 GAAACTTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (16 bp):
AAAAAATTCAAGTCTA
Found at i:97363911 original size:15 final size:14
Alignment explanation
Indices: 97363890--97363928 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
97363880 TAAATATATT
97363890 TATAAAAAAATTGA
1 TATAAAAAAATTGA
97363904 TAT-AAAAAATTGA
1 TATAAAAAAATTGA
97363917 TATAAATAAAAT
1 TATAAA-AAAAT
97363929 ATTAGCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 5 0.22
15 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (14 bp):
TATAAAAAAATTGA
Found at i:97364174 original size:61 final size:60
Alignment explanation
Indices: 97364041--97364174 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
97364031 CTACATCATA
* *
97364041 GGTCATCTAACTATGGATCATTTTCTTTTTTGATTACCAATTATGATTTTGTTTTAAATT
1 GGTCATCTAATTATGGATCATTTTCTTTTTTGATCACCAATTATGATTTTGTTTTAAATT
* * * *
97364101 GGTCACCCAATTATGGAT-TTGTTTCTTTTTT-ATCACCCAGTTATGAATTTT-TTTTAAAATT
1 GGTCATCTAATTATGGATCAT-TTTCTTTTTTGATCA-CCAATTATG-ATTTTGTTTT-AAATT
97364162 GGTCATCTAATTA
1 GGTCATCTAATTA
97364175 ATTGAGATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 37 0.60
61 21 0.34
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.49
Consensus pattern (60 bp):
GGTCATCTAATTATGGATCATTTTCTTTTTTGATCACCAATTATGATTTTGTTTTAAATT
Found at i:97364408 original size:27 final size:28
Alignment explanation
Indices: 97364378--97364435 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
97364368 AGAAATATAT
*
97364378 AAATTTACATAAATATTTAA-AAAATTA
1 AAATTTACATAAATATTAAATAAAATTA
* *
97364405 AAATTTATATTAATATTAAATAAAATTA
1 AAATTTACATAAATATTAAATAAAATTA
97364433 AAA
1 AAA
97364436 AAAAAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATTTACATAAATATTAAATAAAATTA
Found at i:97365257 original size:2 final size:2
Alignment explanation
Indices: 97365250--97365282 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
97365240 AATTTATTAA
97365250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97365283 AATTTATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:97368123 original size:30 final size:29
Alignment explanation
Indices: 97368089--97368159 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
97368079 TTAATAATGG
*
97368089 TAAAATTATATTTTAACATTTT-AAAATTGA
1 TAAAATT-TAATTTAACATTTTAAAAATT-A
**
97368119 TAAAAATTTAATTTAATTTTTTAAAAATTA
1 T-AAAATTTAATTTAACATTTTAAAAATTA
*
97368149 TAAAAATTAAT
1 TAAAATTTAAT
97368160 ACCATTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 9 0.26
30 14 0.40
31 12 0.34
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
TAAAATTTAATTTAACATTTTAAAAATTA
Found at i:97371582 original size:73 final size:73
Alignment explanation
Indices: 97371463--97371681 Score: 366
Period size: 73 Copynumber: 3.0 Consensus size: 73
97371453 GGCTTCCTCA
* *
97371463 GCAGAAAAGCTTGTTCTGTTTACAAGCTCAAGTTGGGGTTGGCTGAGCAACACCAGTAGCAATGG
1 GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTTGGCTGAGCAACACCAGCAGCAATGG
97371528 ACAATGGT
66 ACAATGGT
* * * *
97371536 GCAGAAAAGCTTGTTGTTTTTAGAAGCTCAAGTTGGGGTTGGCTGAGAAACACCAGCAGTAATGG
1 GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTTGGCTGAGCAACACCAGCAGCAATGG
*
97371601 GCAATGGT
66 ACAATGGT
*
97371609 GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGAGTTGGCTGAGCAACACCAGCAGCAATGG
1 GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTTGGCTGAGCAACACCAGCAGCAATGG
97371674 ACAATGGT
66 ACAATGGT
97371682 ACAAATGGGT
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 133 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (73 bp):
GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTTGGCTGAGCAACACCAGCAGCAATGG
ACAATGGT
Found at i:97372511 original size:16 final size:16
Alignment explanation
Indices: 97372492--97372559 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 16
97372482 ATATTTAAAG
97372492 TAAAATTTTATTAATA
1 TAAAATTTTATTAATA
** * *
97372508 TAAAAAGTAAATAATAA
1 TAAAATTTTATTAAT-A
* *
97372525 TAAATTTTTA-TAA-G
1 TAAAATTTTATTAATA
97372539 TAAAATTTTATTAATA
1 TAAAATTTTATTAATA
*
97372555 GAAAA
1 TAAAA
97372560 AGTAAATAAT
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
14 9 0.24
15 3 0.08
16 18 0.49
17 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
TAAAATTTTATTAATA
Found at i:97372543 original size:47 final size:47
Alignment explanation
Indices: 97372485--97372582 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
97372475 ACATTGCATA
*
97372485 TTTA-AAGTAAAATTTTATTAATATAAAAAGTAAATAATAATAAATT
1 TTTATAAGTAAAATTTTATTAATAGAAAAAGTAAATAATAATAAATT
97372531 TTTATAAGTAAAATTTTATTAATAGAAAAAGTAAATAATAATAAATT
1 TTTATAAGTAAAATTTTATTAATAGAAAAAGTAAATAATAATAAATT
97372578 TTTAT
1 TTTAT
97372583 GTTAAATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 4 0.08
47 46 0.92
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (47 bp):
TTTATAAGTAAAATTTTATTAATAGAAAAAGTAAATAATAATAAATT
Found at i:97372870 original size:16 final size:17
Alignment explanation
Indices: 97372839--97372877 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
97372829 ATATATGTAT
97372839 AATAAATATATAAAATC
1 AATAAATATATAAAATC
97372856 AATAAATAT-TAAAATC
1 AATAAATATATAAAATC
*
97372872 TATAAA
1 AATAAA
97372878 ATTCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAATATATAAAATC
Found at i:97373151 original size:10 final size:10
Alignment explanation
Indices: 97373133--97373167 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
97373123 CATTATTAAT
97373133 ATATTATATA
1 ATATTATATA
*
97373143 ATATGATATA
1 ATATTATATA
*
97373153 ACATTATATA
1 ATATTATATA
97373163 ATATT
1 ATATT
97373168 GTAGGAGAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (10 bp):
ATATTATATA
Found at i:97374396 original size:24 final size:24
Alignment explanation
Indices: 97374333--97374416 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 24
97374323 TATTATTTTA
*
97374333 TTTTTTTATCACTCAACTATGATT
1 TTTTTTTGTCACTCAACTATGATT
97374357 TGTTTTAAATTGGTCACTCAACTATGGA-T
1 T-TTTT---TT-GTCACTCAACTAT-GATT
97374386 TTTTTTTGTCAC-CTAACTAT-ACTT
1 TTTTTTTGTCACTC-AACTATGA-TT
97374410 TTTTTTT
1 TTTTTTT
97374417 TTTTTTAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 20 0.40
25 6 0.12
28 6 0.12
29 14 0.28
30 2 0.04
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTTTTTGTCACTCAACTATGATT
Found at i:97374861 original size:19 final size:21
Alignment explanation
Indices: 97374825--97374865 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
97374815 GGGTTTATTA
*
97374825 ATTTTTATTTAATATTAATAT
1 ATTTATATTTAATATTAATAT
97374846 ATTTATATTT-AT-TTAATAT
1 ATTTATATTTAATATTAATAT
97374865 A
1 A
97374866 AATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTATATTTAATATTAATAT
Found at i:97374877 original size:25 final size:25
Alignment explanation
Indices: 97374828--97374877 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
97374818 TTTATTAATT
* **
97374828 TTTATTTAATATTAATATATTTATA
1 TTTATTTAATATAAATATAAATATA
97374853 TTTATTTAATATAAATATAAATATA
1 TTTATTTAATATAAATATAAATATA
97374878 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTATTTAATATAAATATAAATATA
Found at i:97376531 original size:47 final size:47
Alignment explanation
Indices: 97376467--97376577 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
97376457 GACATTGAGT
*
97376467 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
97376514 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
97376561 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
97376578 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:97378473 original size:26 final size:24
Alignment explanation
Indices: 97378432--97378483 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
97378422 ATTTAAAATA
97378432 TGAATTTTAAAATTTTATAAATATTT
1 TGAATTTTAAAATTTT-TAAAT-TTT
* *
97378458 TGAATTTTGAATTTTTTAAATTTT
1 TGAATTTTAAAATTTTTAAATTTT
97378482 TG
1 TG
97378484 TTGAGAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 5 0.21
26 14 0.58
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (24 bp):
TGAATTTTAAAATTTTTAAATTTT
Found at i:97384226 original size:7 final size:8
Alignment explanation
Indices: 97384196--97384224 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
97384186 CAAATACATT
97384196 TAAAAACA
1 TAAAAACA
97384204 TAAAAACA
1 TAAAAACA
97384212 TAAAAACA
1 TAAAAACA
97384220 TAAAA
1 TAAAA
97384225 CAAATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAAACA
Found at i:97384253 original size:17 final size:17
Alignment explanation
Indices: 97384196--97384253 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
97384186 CAAATACATT
97384196 TAAAAACATAAAAAC--A
1 TAAAAACA-AAAAACAAA
*
97384212 TAAAAACATAAAACAAA
1 TAAAAACAAAAAACAAA
*
97384229 TATTAAAATAAAAAACAAA
1 TA--AAAACAAAAAACAAA
97384248 TAAAAA
1 TAAAAA
97384254 ATGAGACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 5 0.14
16 8 0.23
17 7 0.20
19 15 0.43
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.16
Consensus pattern (17 bp):
TAAAAACAAAAAACAAA
Found at i:97389843 original size:20 final size:20
Alignment explanation
Indices: 97389818--97389859 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
97389808 TTTTTTAACT
97389818 TAAAGTTAATTTATTTTTTC
1 TAAAGTTAATTTATTTTTTC
97389838 TAAAGTTAATTTATTTTTTC
1 TAAAGTTAATTTATTTTTTC
97389858 TA
1 TA
97389860 TCTAAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
TAAAGTTAATTTATTTTTTC
Found at i:97392710 original size:43 final size:43
Alignment explanation
Indices: 97392662--97392749 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
97392652 GCTAAAGGTC
97392662 TAGTGTCTTTCAAGTTTTAATTGACATATAGTTTATTTATGGT
1 TAGTGTCTTTCAAGTTTTAATTGACATATAGTTTATTTATGGT
97392705 TAGTGTCTTTCAAGTTTTAATTGACATATAGTTTATTTATGGT
1 TAGTGTCTTTCAAGTTTTAATTGACATATAGTTTATTTATGGT
97392748 TA
1 TA
97392750 ACATTGGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (43 bp):
TAGTGTCTTTCAAGTTTTAATTGACATATAGTTTATTTATGGT
Found at i:97410756 original size:47 final size:47
Alignment explanation
Indices: 97410647--97410757 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
97410637 CCGGAATAAG
* *
97410647 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
97410694 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
97410741 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
97410758 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:97411520 original size:4 final size:4
Alignment explanation
Indices: 97411511--97411585 Score: 53
Period size: 4 Copynumber: 18.2 Consensus size: 4
97411501 TCCTTTTTTA
* ** * **
97411511 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTT- AGTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-TTC TTTC
*
97411561 TTTC TATC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
97411586 CACGTTTGCT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
3 1 0.02
4 47 0.89
5 4 0.08
6 1 0.02
ACGTcount: A:0.04, C:0.27, G:0.05, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:97411617 original size:46 final size:47
Alignment explanation
Indices: 97411513--97411617 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 47
97411503 CTTTTTTATT
* *
97411513 TCTTTCT-TTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
*
97411559 TCTTTCTA-TCTTTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
97411605 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
97411618 ACTCATTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
45 6 0.11
46 48 0.89
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.60
Consensus pattern (47 bp):
TCTTTCTATTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:97415860 original size:13 final size:13
Alignment explanation
Indices: 97415842--97415866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97415832 AAATACATTG
97415842 AAAAATAAAAATA
1 AAAAATAAAAATA
97415855 AAAAATAAAAAT
1 AAAAATAAAAAT
97415867 TTTTTTCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:97418153 original size:15 final size:16
Alignment explanation
Indices: 97418135--97418172 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
97418125 GACCAATTTA
97418135 AAAAATATA-TAAATT
1 AAAAATATACTAAATT
97418150 AAAAATA-ACTAAATT
1 AAAAATATACTAAATT
97418165 -AAAATATA
1 AAAAATATA
97418173 ATTATACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATACTAAATT
Found at i:97418167 original size:31 final size:32
Alignment explanation
Indices: 97418097--97418168 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
97418087 TAGAATTTCA
* *
97418097 AAATTAAAAAGATACAAACATTAAAATTGACC
1 AAATTAAAAAGATACAAACATTAAAAATAACC
* * *
97418129 AATTTAAAAA-ATATATAA-ATTAAAAATAACT
1 AAATTAAAAAGATACA-AACATTAAAAATAACC
97418160 AAATTAAAA
1 AAATTAAAA
97418169 TATAATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (32 bp):
AAATTAAAAAGATACAAACATTAAAAATAACC
Found at i:97419173 original size:29 final size:29
Alignment explanation
Indices: 97419140--97419195 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
97419130 TTTGATCTAT
*
97419140 ATATTCTTATAATGTTATTAATTAGTTTA
1 ATATTCTTATAATATTATTAATTAGTTTA
*
97419169 ATATTTTTATAATATTATTAATTAGTT
1 ATATTCTTATAATATTATTAATTAGTT
97419196 CAAATAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (29 bp):
ATATTCTTATAATATTATTAATTAGTTTA
Found at i:97435109 original size:20 final size:20
Alignment explanation
Indices: 97435084--97435123 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
97435074 GTTAAGTAAA
97435084 ATAATCAAGACAAAAGCTAT
1 ATAATCAAGACAAAAGCTAT
97435104 ATAATCAAGACAAAAGCTAT
1 ATAATCAAGACAAAAGCTAT
97435124 CATCTTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
ATAATCAAGACAAAAGCTAT
Found at i:97437741 original size:22 final size:23
Alignment explanation
Indices: 97437715--97437760 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
97437705 CAACCAAACC
97437715 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
97437737 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
97437760 A
1 A
97437761 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:97437766 original size:23 final size:23
Alignment explanation
Indices: 97437722--97437766 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
97437712 ACCAATTCAA
*
97437722 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
97437745 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
97437767 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:97438197 original size:2 final size:2
Alignment explanation
Indices: 97438190--97438222 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
97438180 TTCATTCCCT
97438190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97438223 TTATCTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97438482 original size:53 final size:54
Alignment explanation
Indices: 97438366--97438500 Score: 227
Period size: 53 Copynumber: 2.5 Consensus size: 54
97438356 CCTTACAGCG
*
97438366 GGATTACCAGTCCAGGCTAAATCCCCTATAATAGAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATAGAAACTCATAGAGTATTGTCA
* * *
97438420 GGATTACCAGTCTAGGCTAAATCCCCTGTATTATAAA-TCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATAGAAACTCATAGAGTATTGTCA
97438473 GGATTACCAGTCCAGGCTAAATCCCCTG
1 GGATTACCAGTCCAGGCTAAATCCCCTG
97438501 CAACGACAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 43 0.57
54 33 0.43
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAATAGAAACTCATAGAGTATTGTCA
Found at i:97441266 original size:21 final size:21
Alignment explanation
Indices: 97441209--97441270 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
97441199 GAAACAGTAT
*
97441209 ACGACACATAAAGTGCCTGAA
1 ACGACACATATAGTGCCTGAA
** *
97441230 ACGACACACGTGGTGCCT-AA
1 ACGACACATATAGTGCCTGAA
*
97441250 TATGACACATATAGTGCCTGA
1 -ACGACACATATAGTGCCTGA
97441271 TCGGCAAAGC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
ACGACACATATAGTGCCTGAA
Found at i:97442762 original size:15 final size:15
Alignment explanation
Indices: 97442726--97442766 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
97442716 ACTAATTACT
97442726 CTTAATTAAACTAAA
1 CTTAATTAAACTAAA
97442741 -TTCAATTAAA-TAAAA
1 CTT-AATTAAACT-AAA
97442756 CTTAATTAAAC
1 CTTAATTAAAC
97442767 ACACTACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.14
15 17 0.77
16 2 0.09
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (15 bp):
CTTAATTAAACTAAA
Found at i:97447360 original size:23 final size:23
Alignment explanation
Indices: 97447334--97447378 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
97447324 GATCCTTGCA
* *
97447334 ATTACTTTAAAATTTTATTTGTC
1 ATTACTTGAAAATTTTAATTGTC
* *
97447357 ATTAGTTGAATATTTTAATTGT
1 ATTACTTGAAAATTTTAATTGT
97447379 AAAATATCCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (23 bp):
ATTACTTGAAAATTTTAATTGTC
Found at i:97454619 original size:28 final size:28
Alignment explanation
Indices: 97454587--97454646 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
97454577 ATCAATTCGA
97454587 AAATCGATTTAGTTTGGAAAGCCATACT
1 AAATCGATTTAGTTTGGAAAGCCATACT
*
97454615 AAATCGATTTAGTTTGGAAAGTCATACT
1 AAATCGATTTAGTTTGGAAAGCCATACT
97454643 AAAT
1 AAAT
97454647 AATAATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (28 bp):
AAATCGATTTAGTTTGGAAAGCCATACT
Found at i:97462388 original size:23 final size:20
Alignment explanation
Indices: 97462362--97462423 Score: 52
Period size: 23 Copynumber: 2.8 Consensus size: 20
97462352 TTGTTGGGTA
97462362 ATATTTATTTTAATATTTTTAGT
1 ATATTTATTTT-ATATTTTT--T
97462385 ATATTTGATGTATTATATTTTTT
1 ATATTT-AT-T-TTATATTTTTT
*
97462408 AAATTTATTTTTATAT
1 ATATTTA-TTTTATAT
97462424 AAAAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 6 0.18
22 2 0.06
23 13 0.38
24 2 0.06
25 9 0.26
26 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
ATATTTATTTTATATTTTTT
Found at i:97464278 original size:16 final size:15
Alignment explanation
Indices: 97464252--97464286 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
97464242 TGATGTGAAT
97464252 AATATAAAATATTAA
1 AATATAAAATATTAA
*
97464267 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
97464283 AATA
1 AATA
97464287 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:97464490 original size:21 final size:21
Alignment explanation
Indices: 97464466--97464505 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
97464456 ATAGTGTAAA
*
97464466 AAATACATACATAATATAATT
1 AAATACATACATAAGATAATT
*
97464487 AAATATATACATAAGATAA
1 AAATACATACATAAGATAA
97464506 CATGTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATACATACATAAGATAATT
Found at i:97464554 original size:25 final size:25
Alignment explanation
Indices: 97464435--97464653 Score: 96
Period size: 25 Copynumber: 8.9 Consensus size: 25
97464425 TACGTGATAA
* *
97464435 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
97464460 TGTAAAAAATACATACATAATATA-
1 TATTAAAGATATATACATAATATAG
* *
97464484 -ATT-AA-ATATATACATAAGATAA
1 TATTAAAGATATATACATAATATAG
* * *
97464506 CATGTAAAATATATATATAAATAATATAG
1 TAT-T--AA-AGATATATACATAATATAG
*
97464535 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* **
97464560 TA-TAATATATATATATGTAATATAG
1 TATTAA-AGATATATACATAATATAG
* * * *
97464585 AATT-TAGA-ATATACTTAATATAT
1 TATTAAAGATATATACATAATATAG
** * * *
97464608 TAAAAGAATATATATATATAATATAA
1 TATTA-AAGATATATACATAATATAG
*
97464634 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
97464654 ACAAAAAAAG
Statistics
Matches: 144, Mismatches: 37, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
21 14 0.10
22 2 0.01
23 22 0.15
24 14 0.10
25 56 0.39
26 17 0.12
27 1 0.01
28 2 0.01
29 16 0.11
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:97465148 original size:18 final size:18
Alignment explanation
Indices: 97465125--97465177 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
97465115 ACAAGTGGTG
97465125 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
97465143 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
97465155 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
97465173 GTGGA
1 GTGGA
97465178 ATTGGTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.15
14 4 0.15
16 4 0.15
17 4 0.15
18 8 0.30
ACGTcount: A:0.19, C:0.08, G:0.49, T:0.25
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:97465156 original size:30 final size:30
Alignment explanation
Indices: 97465120--97465188 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
97465110 TAGGTACAAG
*
97465120 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAAT
97465150 TGGTGGTGGAGCAAGTGTGGCTAGTGGAAT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAAT
97465180 TGGTGGTGG
1 TGGTGGTGG
97465189 CAAAGGCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.16, C:0.06, G:0.51, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAAT
Found at i:97466129 original size:88 final size:88
Alignment explanation
Indices: 97465843--97466160 Score: 294
Period size: 88 Copynumber: 3.6 Consensus size: 88
97465833 GTGATCCTGA
* * * *
97465843 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT-AAAAATAGA--AAT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTCTTGAAAACATA-A-ATTGAAAAA-AGATTAAT
* * *
97465904 TGAAAATAGCTCAGCACGTGAGCCAAG
63 TGAAAATACCTCAG-ACGTGACCCGAG
* * * *
97465931 GCTCAACTCACTTCTTGTAATATGAGTTGATT-TTTAAAACA-AAATTTGTAAAACAGATT--TT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTCTTGAAAACATAAA-TTG-AAAAAAGATTAATT
* * *
97465992 GAAAATACCTCGGTATGTGACCTGAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* * * *
97466018 GCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGTATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTCTTGAAAA-CATAAATTGAAAAAAGATTAATTG
*
97466083 AAAATACCTCAG-CGTGCCCCGAG
65 AAAATACCTCAGACGTGACCCGAG
* *
97466106 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTCTTGAAAACATAAATTGAAAA
97466161 CACCTCAGCG
Statistics
Matches: 189, Mismatches: 28, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 63 0.33
88 80 0.42
89 16 0.08
90 26 0.14
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (88 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTCTTGAAAACATAAATTGAAAAAAGATTAATTGA
AAATACCTCAGACGTGACCCGAG
Found at i:97466134 original size:175 final size:174
Alignment explanation
Indices: 97465825--97466140 Score: 422
Period size: 175 Copynumber: 1.8 Consensus size: 174
97465815 TGATTCTTTA
* *
97465825 CTCGGCATGTGATCCTGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAGACA
1 CTCGGCATGTGATCCTGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGAAA
* * * * * *
97465890 TTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTTGTAATATG
66 TTAAAAATACAAATTGAAAATACCTCAG-ACGTGACCCAAGGCTCAACTCACCTCTCGCAATATG
97465955 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
130 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
* * * * * *
97466000 CTCGGTATGTGA-CCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGTATAA
1 CTCGGCATGTGATCCTGA-GCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGAA
* *
97466064 ATTGAAAAA-ACATTAATTGAAAATACCTCAG-CGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
65 ATT-AAAAATACA--AATTGAAAATACCTCAGACGTGACCCAAGGCTCAACTCACCTCTCGCAAT
97466127 ATGAGTTGATTTTT
127 ATGAGTTGATTTTT
97466141 TTGAAAACAT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
174 5 0.04
175 95 0.79
176 5 0.04
177 16 0.13
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (174 bp):
CTCGGCATGTGATCCTGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGAAA
TTAAAAATACAAATTGAAAATACCTCAGACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
Found at i:97466200 original size:76 final size:76
Alignment explanation
Indices: 97466078--97466694 Score: 592
Period size: 77 Copynumber: 8.1 Consensus size: 76
97466068 AAAAAACATT
* * *
97466078 AATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
97466141 TTGAAAACATA
66 TTGAAAACAGA
*
97466152 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTT
1 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
97466216 TTGATGAACAGA
66 TTGA-AAACAGA
* * *
97466228 AATT-AAAACTACCTCAACGTGT--CCTGAGGCTTAACTCACCTCTCGCAACATGAGTTGATTTT
1 AATTGAAAAC-ACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
97466290 TTTGAAAAACAGA
65 TTTG-AAAACAGA
* * * *
97466303 AGTTGAAAACACCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTCGCAATATAAGTTGATTTTT
1 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
97466368 TTGACAAATAGA
66 TTGA-AAACAGA
* * * * *
97466380 AATTGAAAAATACCTCAACGTGTAAGCC-AAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TT
1 AATTG-AAAACACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
97466443 TTTTGAAAAATAGA
64 TTTTG-AAAACAGA
*
97466457 AATTGAAAACACCTCAGC--ATG---TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
97466517 TAAAAACAT-AAATTGAGCAGA
66 T-------TGAAA---A-CAGA
* * * * *
97466538 AATTGAAAATACCTCAACG-G-GTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** *
97466600 TTG--ATGATA
66 TTGAAAACAGA
* * * *
97466609 AATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
97466672 TGAATTAAAACAGA
66 T---TGAAAACAGA
97466686 AATTGAAAA
1 AATTGAAAA
97466695 TAGAAATGGA
Statistics
Matches: 457, Mismatches: 47, Indels: 75
0.79 0.08 0.13
Matches are distributed among these distances:
70 1 0.00
71 84 0.18
72 10 0.02
74 51 0.11
75 42 0.09
76 76 0.17
77 85 0.19
78 46 0.10
79 3 0.01
80 1 0.00
81 20 0.04
83 5 0.01
84 33 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
AATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGAAAACAGA
Found at i:97466361 original size:77 final size:76
Alignment explanation
Indices: 97466069--97466694 Score: 595
Period size: 71 Copynumber: 8.2 Consensus size: 76
97466059 TATAAATTGA
** * *
97466069 AAAAACATTAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
97466132 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * *
97466144 -AAAACATAAATTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
97466208 TTGATTTTTTG
66 TTGATTTTTTG
** * * * *
97466219 ATGAACAGAAATT-AAAACTACCTCAACGTGT--CCTGAGGCTTAACTCACCTCTCGCAACATGA
1 AAAAACAGAAATTGAAAAC-ACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
97466281 GTTGATTTTTTTG
65 GTTGA-TTTTTTG
* * *
97466294 AAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
97466359 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * * * * * * *
97466371 ACAAATAGAAATTGAAAAATACCTCAACGTGTAAGCCAAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTG-AAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
97466436 GTTGATTTTTTG
65 GTTGATTTTTTG
* *
97466448 AAAAATAGAAATTGAAAACACCTCAGCATGT-----GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
97466508 TTGATTTTTTAAAAAC
66 TTGATTTTTT-----G
* * * ** *
97466524 ATAAATTGAGCAGAAATTGAAAATACCTCAACG-G-GTCTTGAAGCTCAACTCACCTCTCGCAAT
1 A-AAA---A-CAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
97466587 ATGAGTTGATTTTTTG
61 ATGAGTTGATTTTTTG
** * * * ** *
97466603 ---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
97466663 TTGATTTTTTG
66 TTGATTTTTTG
97466674 AATTAAAACAGAAATTGAAAA
1 -A--AAAACAGAAATTGAAAA
97466695 TAGAAATGGA
Statistics
Matches: 466, Mismatches: 53, Indels: 62
0.80 0.09 0.11
Matches are distributed among these distances:
70 1 0.00
71 97 0.21
74 57 0.12
75 41 0.09
76 77 0.17
77 87 0.19
78 47 0.10
80 2 0.00
81 19 0.04
84 38 0.08
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTG
Found at i:97466576 original size:155 final size:157
Alignment explanation
Indices: 97466411--97466780 Score: 423
Period size: 155 Copynumber: 2.3 Consensus size: 157
97466401 GTAAGCCAAG
*
97466411 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTC-A-G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT--AAATTGAAAACACCTCAATG
* *
97466474 -CA-TGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-A-AAAACATAAATTG-AG
64 TCACT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAATAAAACAGAAATTGAAA
* * *
97466534 CAGAAATTGAAAATACCTCAACGGGTCTTGAA
128 CAGAAATGGAAAACACCTC-A-GCGTCTTGAA
** * *
97466566 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGATAAATTGAAAATACCTCAATGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATGTC
*
97466630 ACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
66 ACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-AA-TAAAACAGAAATTG-AAA
* *
97466695 TAGAAATGGAAAACACCTCAGCGTCTTGAG
128 CAGAAATGGAAAACACCTCAGCGTCTTGAA
* * * * *
97466725 GTTCAACTCACCTCTCGTAATATAAGCTGATTTTTTTGAAACACATAAATTAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-A-ATAAATTGAAAA
97466781 AAAATTAAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
152 15 0.08
153 1 0.01
154 4 0.02
155 76 0.42
156 1 0.01
157 1 0.01
159 46 0.25
160 8 0.04
161 18 0.10
163 11 0.06
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (157 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATGTC
ACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAATAAAACAGAAATTGAAACAG
AAATGGAAAACACCTCAGCGTCTTGAA
Found at i:97466985 original size:76 final size:73
Alignment explanation
Indices: 97466827--97467083 Score: 335
Period size: 76 Copynumber: 3.5 Consensus size: 73
97466817 TGGCCCGAGA
** *
97466827 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAAAAG-AATTGAAAATACCTCAGCG
97466892 TGT-CTCGAGG
64 TGTCCT-GAGG
*
97466902 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATAAAAATAGAATTTGAAAATATCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAAAA-AGAA-TTGAAAATACCTCAGC
97466967 GTGTCCTGAGG
63 GTGTCCTGAGG
* *
97466978 CTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGACAAACAAA-AATTGAAATTACCTCAGC-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAA-AAAGAATTGAAAATACCTCAGCG
*
97467040 -GTCTTGAGG
64 TGTCCTGAGG
*
97467049 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
97467084 TTAAACATAA
Statistics
Matches: 165, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
71 35 0.21
72 5 0.03
73 14 0.08
74 8 0.05
75 47 0.28
76 54 0.33
77 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (73 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAGAATTGAAAATACCTCAGCGTG
TCCTGAGG
Found at i:97467149 original size:411 final size:408
Alignment explanation
Indices: 97466412--97467287 Score: 1016
Period size: 411 Copynumber: 2.1 Consensus size: 408
97466402 TAAGCCAAGG
* *
97466412 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCAT
97466477 GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACATAAATTGAGCAGAAATT
66 GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACATAAATT--G-AGAAATT
* **
97466542 GAAAATACCTCAACGGGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
128 GAAAATACCTCAACGGGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACA
* * *
97466607 TAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
193 AAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * *
97466672 TGAATTAAAACAGAAATTGAAAATAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACC
258 T--ATTAAAACAGAAATTAAAAAAAGAAATGAAAAACACCTCAGCGTCCTGAGGCTCAACTCACC
* *
97466737 TCTCGTAATATAAGCTGATTTTTTTGAAACA-CATAA-AT-TAA-AAAAAAATT-AAAAACAGAA
321 TCTCGCAATATAAGCTGA----TTTGAAA-AGCAGAATATGTAAGAAAAAAATTGAAAAACAGAA
*
97466797 TTTGAAAAGACCTC-GACGTATGGCCC-GAGA
381 ATTGAAAAGACCTCAG-CG--T-GCCCTGAGA
* * **
97466827 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAACAGAAATTGAAAACACCTCAGCA
* * *
97466892 TGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GATA-A-AAA-T-AGAATT
65 TG--T-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACATAAATTGAGAAAT
* * * * *
97466952 TGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGACA
127 TGAAAATACCTCAACGGGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---
* * *
97467016 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
189 AACAAAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
97467079 TTTTT-TT-AAACATAAATTAAAAAAACGAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAA
254 TTTTTATTAAAACAGAAATTAAAAAAA-G-AAATGAAAAACACCTCAGC--GTCCTGAGGCTCAA
* * * **
97467142 CTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAGA
315 CTCACCTCTCGCAATATAAGCTGATTTGAAAAGCAGAATATGTAAGAAAAAAATTGAAAAACAGA
* *
97467207 AATTGAAAATACCTCAGCGTGCCCTGAGG
380 AATTGAAAAGACCTCAGCGTGCCCTGAGA
*
97467236 CTCAACTCACCTCGCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
97467288 GTAGAAATTG
Statistics
Matches: 400, Mismatches: 43, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
406 5 0.01
407 43 0.11
408 9 0.02
409 51 0.13
410 13 0.03
411 153 0.38
412 2 0.00
413 17 0.04
415 31 0.08
416 33 0.08
417 1 0.00
418 3 0.01
419 39 0.10
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (408 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACATAAATTGAGAAATTGAA
AATACCTCAACGGGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAA
ATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAT
TAAAACAGAAATTAAAAAAAGAAATGAAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCTCG
CAATATAAGCTGATTTGAAAAGCAGAATATGTAAGAAAAAAATTGAAAAACAGAAATTGAAAAGA
CCTCAGCGTGCCCTGAGA
Found at i:97467307 original size:14 final size:13
Alignment explanation
Indices: 97467271--97467315 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
97467261 TTGATTTTTG
97467271 AAAAACAGAAATT
1 AAAAACAGAAATT
**
97467284 AAAAGTAGAAATT
1 AAAAACAGAAATT
97467297 GAAAAACAGAAATT
1 -AAAAACAGAAATT
97467311 AAAAA
1 AAAAA
97467316 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:97467336 original size:100 final size:101
Alignment explanation
Indices: 97467099--97467387 Score: 424
Period size: 100 Copynumber: 2.9 Consensus size: 101
97467089 CATAAATTAA
*
97467099 AAAAAC-GAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
97467163 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* *
97467198 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCGCGCAATATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
97467263 GATTTTTGAAAAACAGAAATT-AAAAGTAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * *
97467298 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
97467363 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGCAGAAATTGAAA
97467388 TTACCTCAGC
Statistics
Matches: 170, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
99 62 0.36
100 90 0.53
101 18 0.11
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:97467393 original size:73 final size:74
Alignment explanation
Indices: 97467295--97467462 Score: 248
Period size: 73 Copynumber: 2.3 Consensus size: 74
97467285 AAAGTAGAAA
* * * * * *
97467295 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
97467360 GTTGA-TTT
66 GTTGATTTT
* * *
97467368 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
97467433 GTTGATTTT
66 GTTGATTTT
97467442 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
97467463 AACGAAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 61 0.73
74 23 0.27
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:97467562 original size:91 final size:89
Alignment explanation
Indices: 97467379--97467548 Score: 252
Period size: 91 Copynumber: 1.9 Consensus size: 89
97467369 TGAAAAGCAT
* * *
97467379 AAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGACCCAACTCACCTCTCGCAATATGAGTTAATTTTTT
*
97467444 GAAAAGCATAAATTGAAAAAACGA
66 GAAAAGCAGAAATTGAAAAAACGA
*
97467468 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGACCCAACTCACCTCTCGCAATATGAGTTAA-TTT
97467533 TTTG-AAAGACAGAAAT
63 TTTGAAAAG-CAGAAAT
97467549 AAAAACATCA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
89 22 0.31
91 37 0.51
92 13 0.18
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGACCCAACTCACCTCTCGCAATATGAGTTAATTTTTT
GAAAAGCAGAAATTGAAAAAACGA
Done.