Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 11 of 144
Found at i:2715885 original size:144 final size:144
Alignment explanation
Indices: 2715698--2716099 Score: 750
Period size: 144 Copynumber: 2.8 Consensus size: 144
2715688 GTCCATTTCA
* ** *
2715698 CTCTCCCTAAACAAATTGAGTGGCCCAATCCCTTCTTGTATTGGTAGCTTATCAAAGATGCAGTA
1 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATGCAGTA
2715763 CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATTTGTAATTTAGCAAATT
66 CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATTTGTAATTTAGCAAATT
2715828 TAACTTCATTGGAG
131 TAACTTCATTGGAG
2715842 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATGCAGTA
1 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATGCAGTA
2715907 CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATTTGTAATTTAGCAAATT
66 CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATTTGTAATTTAGCAAATT
2715972 TAACTTCATTGGAG
131 TAACTTCATTGGAG
*
2715986 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATGCAGGA
1 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATGCAGTA
*
2716051 CCTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATT
66 CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATT
2716100 GGCAAGCTTT
Statistics
Matches: 252, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 252 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (144 bp):
CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGATGCAGTA
CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATTTGTAATTTAGCAAATT
TAACTTCATTGGAG
Found at i:2723135 original size:30 final size:30
Alignment explanation
Indices: 2723101--2723212 Score: 106
Period size: 30 Copynumber: 3.7 Consensus size: 30
2723091 TTTAGAAGAT
2723101 TCGGGGGT-AAAATGGTAATTTTTGGTGAAA
1 TCGGGGGTAAAAATGG-AATTTTTGGTGAAA
* **
2723131 TCGGGGTTAAAAATGGAATTTTT--AAAAGA
1 TCGGGGGTAAAAATGGAATTTTTGGTGAA-A
*
2723160 TTCTGGGGT-AAAATGGTAATTTTTGGTGAAA
1 -TCGGGGGTAAAAATGG-AATTTTTGGTGAAA
* *
2723191 TCGAGGTTAAAAATGGAATTTT
1 TCGGGGGTAAAAATGGAATTTT
2723213 AGAAGATTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
28 2 0.03
29 8 0.12
30 38 0.58
31 15 0.23
32 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (30 bp):
TCGGGGGTAAAAATGGAATTTTTGGTGAAA
Found at i:2723176 original size:60 final size:59
Alignment explanation
Indices: 2723067--2723241 Score: 278
Period size: 60 Copynumber: 2.9 Consensus size: 59
2723057 TGATAAACGA
* * * *
2723067 TGAAATCGGGGTGAAAAATGGGACTTTAGAAGATTCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCTGGGGTAAAATGGTAATTTTTGG
*
2723126 TGAAATCGGGGTTAAAAATGGAATTTTTAAAAGATTCTGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAA-TTTTAGAAGATTCTGGGGTAAAATGGTAATTTTTGG
* *
2723186 TGAAATCGAGGTTAAAAATGGAATTTTAGAAGATTTTGGGGTAAAATGGTAATTTT
1 TGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCTGGGGTAAAATGGTAATTTT
2723242 CAAAAGTTTC
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
59 52 0.49
60 55 0.51
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
TGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTCTGGGGTAAAATGGTAATTTTTGG
Found at i:2723255 original size:29 final size:31
Alignment explanation
Indices: 2723200--2723293 Score: 99
Period size: 29 Copynumber: 3.2 Consensus size: 31
2723190 ATCGAGGTTA
*
2723200 AAAATGG-AATTTT-AGAAGATTTTGGGGT-
1 AAAATGGTAATTTTCAAAAGATTTTGGGGTC
*
2723228 AAAATGGTAATTTTCAAAAG-TTTCGGGGTC
1 AAAATGGTAATTTTCAAAAGATTTTGGGGTC
* * * *
2723258 AGAAT-GTAATTTCCTAAAGCTTTTGGGGTC
1 AAAATGGTAATTTTCAAAAGATTTTGGGGTC
2723288 AAAATG
1 AAAATG
2723294 CAATTTCTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 7 0.13
29 26 0.48
30 21 0.39
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (31 bp):
AAAATGGTAATTTTCAAAAGATTTTGGGGTC
Found at i:2723288 original size:30 final size:29
Alignment explanation
Indices: 2723219--2723300 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
2723209 TTTTAGAAGA
*
2723219 TTTTGGGGT-AAAATGGTAATTTTCAAAAG
1 TTTTGGGGTCAAAAT-GTAATTTCCAAAAG
* * *
2723248 TTTCGGGGTCAGAATGTAATTTCCTAAAG
1 TTTTGGGGTCAAAATGTAATTTCCAAAAG
*
2723277 CTTTTGGGGTCAAAATGCAATTTC
1 -TTTTGGGGTCAAAATGTAATTTC
2723301 TAGACTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (29 bp):
TTTTGGGGTCAAAATGTAATTTCCAAAAG
Found at i:2723731 original size:162 final size:161
Alignment explanation
Indices: 2723397--2723720 Score: 445
Period size: 161 Copynumber: 2.0 Consensus size: 161
2723387 AATTGTAAAT
* * * *
2723397 CTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTAAAATA
1 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAATAAAAGTCGATTTAGGGATTAAATTAAAACA
*** * * * *
2723462 AATTAAAATGTCAGGGACTAAATGCGTAAATAAGTCAAAAAGTGACACGTGGCAGTCCCTGGTGC
66 AATTAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGTCCCTGGTAC
* * *
2723527 AGCCACACAGTCAAAGGACTAATTTATAAAT
131 AGCCAAACAGTCAAAGGACTAATTTAGAAAG
* *
2723558 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTGGGGATTAAATTAAAACA
1 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAATAAAAGTCGATTTAGGGATTAAATTAAAACA
*
2723623 AATTAAAATAAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGTAG-CCTCTGGT
66 AATTAAAAT-AAAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGTCC-CTGGT
* *
2723687 ACAGTCAAATAGTCAAAGGACTAATTT-GAAAG
129 ACAGCCAAACAGTCAAAGGACTAATTTAGAAAG
2723719 CT
1 CT
2723721 AATTAAAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
161 75 0.53
162 67 0.47
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (161 bp):
CTTGAAAAATTATTGGGCCAATTTCGTAATTAAATAAAAGTCGATTTAGGGATTAAATTAAAACA
AATTAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGTCCCTGGTAC
AGCCAAACAGTCAAAGGACTAATTTAGAAAG
Found at i:2725450 original size:6 final size:6
Alignment explanation
Indices: 2725441--2725521 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
2725431 TTTTTTAATG
* ** * *
2725441 TTAAAT TTAATGAT TTAATT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA--AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
2725490 TTAAAT AATTAAAT TTAAAT TTAAAT TTAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT
2725522 AAAATTAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
5 3 0.05
6 45 0.75
8 12 0.20
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:2725499 original size:26 final size:26
Alignment explanation
Indices: 2725465--2725523 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
2725455 TTAATTTTTT
2725465 ATTTAAAT--TTAAATTCAAA-GTAA
1 ATTTAAATAATTAAATTCAAATGTAA
* *
2725488 ATTTAAATAATTAAATTTAAATTTAA
1 ATTTAAATAATTAAATTCAAATGTAA
2725514 ATTTAAATAA
1 ATTTAAATAA
2725524 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 8 0.26
25 10 0.32
26 13 0.42
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTTAAATAATTAAATTCAAATGTAA
Found at i:2726347 original size:28 final size:29
Alignment explanation
Indices: 2726315--2726369 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
2726305 TAAAATATTA
*
2726315 TAACACGTTA-ACGTAAGTGACTAAAACG
1 TAACAAGTTATACGTAAGTGACTAAAACG
*
2726343 TAACAATTTATACGTAAGTGACTAAAA
1 TAACAAGTTATACGTAAGTGACTAAAA
2726370 TATAACTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (29 bp):
TAACAAGTTATACGTAAGTGACTAAAACG
Found at i:2727221 original size:16 final size:15
Alignment explanation
Indices: 2727205--2727247 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
2727195 CATTATTAAT
2727205 TTAAAATTTTATAAA
1 TTAAAATTTTATAAA
* **
2727220 TTATAAATGTCCTAAA
1 TTA-AAATTTTATAAA
2727236 TTAAAATTTTAT
1 TTAAAATTTTAT
2727248 CATTTTAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (15 bp):
TTAAAATTTTATAAA
Found at i:2727963 original size:24 final size:24
Alignment explanation
Indices: 2727935--2727995 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
2727925 AGAAATAATC
*
2727935 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
2727959 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
2727983 TTTGAGTCAAACT
1 TTTCAGTTAAACT
2727996 TTTATTTCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:2729958 original size:24 final size:24
Alignment explanation
Indices: 2729930--2729980 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2729920 AGAAATAATC
* *
2729930 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
2729954 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
2729978 TTT
1 TTT
2729981 GAGTCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:2731309 original size:31 final size:31
Alignment explanation
Indices: 2731274--2731337 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
2731264 GAAAATTTTC
*
2731274 TTTGGTCTATGGAGGATGGGAACAGTATTTG
1 TTTGGTCTATGGAGGATGGGAACAATATTTG
*
2731305 TTTGGTCTATGGGGGATGGGAACAATATTTG
1 TTTGGTCTATGGAGGATGGGAACAATATTTG
2731336 TT
1 TT
2731338 CTTGGAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (31 bp):
TTTGGTCTATGGAGGATGGGAACAATATTTG
Found at i:2740768 original size:25 final size:27
Alignment explanation
Indices: 2740740--2740794 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
2740730 TTTAACTCTA
2740740 TTTTTA-AA-AAATATTTGCAATGTTT
1 TTTTTATAATAAATATTTGCAATGTTT
*
2740765 TTTTTATAATTAATTATTTGCAATGTTT
1 TTTTTATAA-TAAATATTTGCAATGTTT
2740793 TT
1 TT
2740795 AGTAACCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.23
26 2 0.08
28 18 0.69
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTTTATAATAAATATTTGCAATGTTT
Found at i:2747036 original size:14 final size:14
Alignment explanation
Indices: 2747019--2747049 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2747009 AGGGTTTAAA
2747019 AAATTTAATTAATT
1 AAATTTAATTAATT
*
2747033 AAATTTATTTAATT
1 AAATTTAATTAATT
2747047 AAA
1 AAA
2747050 GATTTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:2747245 original size:31 final size:29
Alignment explanation
Indices: 2747176--2747249 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
2747166 ACAAAATACT
*
2747176 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATTGCA
2747205 AACATAAGTGACTAAAATGTAAC-TTGAGGCA
1 AACATAAGTGACTAAAATGTAACATT---GCA
*
2747236 AACAAAAGTGACTA
1 AACATAAGTGACTA
2747250 TTTTTATAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
31 15 0.38
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATTGCA
Found at i:2749284 original size:144 final size:145
Alignment explanation
Indices: 2749034--2749467 Score: 667
Period size: 144 Copynumber: 3.0 Consensus size: 145
2749024 TTTGACCTGA
* * *
2749034 AAGCCTATTGAAGGATAGATCCAATTTAACCAAATTCGTTAGTCT-CAAAAATTCTTGTGGAATG
1 AAGCCTATTGAAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATTCTTGTGGAATG
*
2749098 GATCCGTTAAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAATTTGCTGACAGAAGA
66 GATCCATTAAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAATTTGCTGACAGAAGA
2749163 TGGGATTGGACCAAC
131 TGGGATTGGACCAAC
* * *
2749178 AAGCCTATTGGAGGATAGATCCAATTCAACCAAATTCCTTAGTCTCCCAATATT-TTCTGGAATG
1 AAGCCTATTGAAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATTCTTGTGGAATG
* ** * * *
2749242 GAACCATTAAGTTGGTTGCTTTGAAGGAACAAGGAGGAAAGATTGGTTAATTTTCTGACAGAAGA
66 GATCCATTAAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAATTTGCTGACAGAAGA
2749307 TGGGATTGGACCAAC
131 TGGGATTGGACCAAC
*
2749322 AAGCCTATTGAAGGATAGATCCAATTCAACCAAATTCGTTAATCTCCCAAT-TTCTTGTGGAATG
1 AAGCCTATTGAAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATTCTTGTGGAATG
* * **
2749386 GATCCATTAAGTTTGTTGATTTGAAGGATTAACGAGGCAAGATTGGTTAAGCTGCTGACAGAAGA
66 GATCCATTAAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAATTTGCTGACAGAAGA
* *
2749451 GGGGATTGGTCCAAC
131 TGGGATTGGACCAAC
2749466 AA
1 AA
2749468 ACCAGTTGTT
Statistics
Matches: 259, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
143 2 0.01
144 251 0.97
145 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (145 bp):
AAGCCTATTGAAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATTCTTGTGGAATG
GATCCATTAAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAATTTGCTGACAGAAGA
TGGGATTGGACCAAC
Found at i:2756593 original size:17 final size:17
Alignment explanation
Indices: 2756557--2756638 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
2756547 AATTTTTAAT
*
2756557 TTTTAAATCTT-AGTTTA
1 TTTTAAAT-TTAAATTTA
2756574 TTTTAAATTTAAA-TTA
1 TTTTAAATTTAAATTTA
*
2756590 ATTTATAATTTAAATTTA
1 TTTTA-AATTTAAATTTA
* *
2756608 TGTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
* *
2756625 TTTTGAATTAAAAT
1 TTTTAAATTTAAAT
2756639 GATTTAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 9 0.17
17 38 0.72
18 6 0.11
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:2760966 original size:144 final size:144
Alignment explanation
Indices: 2760720--2761302 Score: 878
Period size: 144 Copynumber: 4.0 Consensus size: 144
2760710 TGTGACCTGA
* * * * *
2760720 AAGCCTATTGGAGGATAGATCCAATTCATCCAAATTCCTCAGTCTCCAAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAATATCTTCTGGAATGG
* * ** **
2760785 ATCCGTTGAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 AACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
2760850 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* **
2760864 AAGCCTATTGGAGGATAGATCCAATTCTGCCAAATTCCTCAGTCTCCCAATATCTTCTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAATATCTTCTGGAATGG
* *
2760929 AACCATCAAGTTGGTTGCTTTGAAGGAACAAGGAGGCAAGCTTGGTTAAGTTGCTGACAGAAGAT
66 AACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
2760994 GGGATTGGATCAAC
131 GGGATTGGACCAAC
*
2761008 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCCAATATCTTCTGGAATA
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCT-CCCAATATCTTCTGGAATG
* * * *
2761073 GAACCATCAAGTTGGTTGCTTTGAAGGAGCAAGGAGGCAAGCTCGGTTAAGTTGCTGACAGAAGA
65 GAACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGA
2761138 TGGGATTGGACCAAC
130 TGGGATTGGACCAAC
* * *
2761153 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAATATCTTCTGGAATGG
* * * * *
2761218 ATCCATTAAGTTTGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGCTGCTGACAGAAGAT
66 AACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
2761283 GGGATTGGTCCAAC
131 GGGATTGGACCAAC
2761297 AAGCCT
1 AAGCCT
2761303 GTTGTTTGAG
Statistics
Matches: 403, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
144 264 0.66
145 139 0.34
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (144 bp):
AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAATATCTTCTGGAATGG
AACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
GGGATTGGACCAAC
Found at i:2761238 original size:289 final size:288
Alignment explanation
Indices: 2760720--2761302 Score: 889
Period size: 289 Copynumber: 2.0 Consensus size: 288
2760710 TGTGACCTGA
* * * * *
2760720 AAGCCTATTGGAGGATAGATCCAATTCATCCAAATTCCTCAGTCTCCAAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCAAATATCTTCTGGAATAG
* * ** ** *
2760785 ATCCGTTGAGTTGGTTGCTTTGAAGGATTAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 AACCATCAAGTTGGTTGCTTTGAAGGAGCAACGAGGCAAGATCGGTTAAGTTGCTGACAGAAGAT
* **
2760850 GGGATTGGACCAACAAGCCTATTGGAGGATAGATCCAATTCTGCCAAATTCCTCAGTCTCCCAAT
131 GGGATTGGACCAACAAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAAT
* * *
2760915 ATCTTCTGGAATGGAACCATCAAGTTGGTTGCTTTGAAGGAACAAGGAGGCAAGCTTGGTTAAGT
196 ATCTTCTGGAATGGAACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGC
2760980 TGCTGACAGAAGATGGGATTGGAT-CAAC
261 TGCTGACAGAAGATGGGATTGG-TCCAAC
*
2761008 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCCAATATCTTCTGGAATA
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCT-CCAAATATCTTCTGGAATA
* *
2761073 GAACCATCAAGTTGGTTGCTTTGAAGGAGCAAGGAGGCAAGCTCGGTTAAGTTGCTGACAGAAGA
65 GAACCATCAAGTTGGTTGCTTTGAAGGAGCAACGAGGCAAGATCGGTTAAGTTGCTGACAGAAGA
*
2761138 TGGGATTGGACCAACAAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAA
130 TGGGATTGGACCAACAAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAA
* * * * * *
2761203 TTTCTTGTGGAATGGATCCATTAAGTTTGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAG
195 TATCTTCTGGAATGGAACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAG
2761268 CTGCTGACAGAAGATGGGATTGGTCCAAC
260 CTGCTGACAGAAGATGGGATTGGTCCAAC
2761297 AAGCCT
1 AAGCCT
2761303 GTTGTTTGAG
Statistics
Matches: 265, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
288 44 0.17
289 221 0.83
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (288 bp):
AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCAAATATCTTCTGGAATAG
AACCATCAAGTTGGTTGCTTTGAAGGAGCAACGAGGCAAGATCGGTTAAGTTGCTGACAGAAGAT
GGGATTGGACCAACAAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTCAGTCTCCCAAT
ATCTTCTGGAATGGAACCATCAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGC
TGCTGACAGAAGATGGGATTGGTCCAAC
Found at i:2763789 original size:18 final size:18
Alignment explanation
Indices: 2763768--2763816 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
2763758 TCTTTTAAAA
2763768 TTTTAAAAATATTA-AATT
1 TTTTAAAAAT-TTAGAATT
2763786 TTTTAAAAAGTTTAGAATT
1 TTTTAAAAA-TTTAGAATT
2763805 TTTTAAAAATTT
1 TTTTAAAAATTT
2763817 GAACTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATTTAGAATT
Found at i:2763804 original size:19 final size:18
Alignment explanation
Indices: 2763768--2763814 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
2763758 TCTTTTAAAA
2763768 TTTTAAAAATATTAAATT
1 TTTTAAAAATATTAAATT
2763786 TTTTAAAAAGT-TTAGAATT
1 TTTTAAAAA-TATTA-AATT
2763805 TTTTAAAAAT
1 TTTTAAAAAT
2763815 TTGAACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TTTTAAAAATATTAAATT
Found at i:2772153 original size:58 final size:58
Alignment explanation
Indices: 2772041--2772156 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
2772031 ATCAACAAAT
* * *
2772041 TAAATCCATATATTTTTAAACCCAAATATAATTTCATTATTCAAAAACACTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTCAAAAACACTCATAAAC
* * * *
2772099 TAAACCCAAATATTTTTAAACTCAAATATAATTTTATTCCT-AAATAACATTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTCAAA-AACACTCATAAAC
2772157 AACTATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 3 0.06
58 47 0.94
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTACTCAAAAACACTCATAAAC
Found at i:2774037 original size:10 final size:10
Alignment explanation
Indices: 2774015--2774063 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
2774005 GTATTAAATT
2774015 TTTTTATATTA
1 TTTTTATA-TA
2774026 TTTTTATATA
1 TTTTTATATA
*
2774036 TTTTTAAAAAATA
1 TTTTT---ATATA
2774049 TTTTTATATA
1 TTTTTATATA
2774059 TTTTT
1 TTTTT
2774064 TAAATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 16 0.48
11 8 0.24
13 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTATATA
Found at i:2774050 original size:23 final size:23
Alignment explanation
Indices: 2774024--2774072 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2774014 TTTTTTATAT
2774024 TATTTTTATATATTTTTAAAAAA
1 TATTTTTATATATTTTTAAAAAA
* *
2774047 TATTTTTATATATTTTTTAAATA
1 TATTTTTATATATTTTTAAAAAA
2774070 TAT
1 TAT
2774073 ATAATACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTTATATATTTTTAAAAAA
Found at i:2774867 original size:20 final size:18
Alignment explanation
Indices: 2774830--2774870 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
2774820 TTTTAATGTT
*
2774830 ATTTATATTGATTTTATG
1 ATTTATATTGAATTTATG
2774848 ATTTATATTTGAGATTTATG
1 ATTTATA-TTGA-ATTTATG
2774868 ATT
1 ATT
2774871 GTATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
ATTTATATTGAATTTATG
Found at i:2775670 original size:27 final size:25
Alignment explanation
Indices: 2775631--2775691 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
2775621 ATTTCGTGTT
2775631 CAAATTTGCAAATTACAAAAAATAAAC
1 CAAATTTGCAAATTA-AAAAAA-AAAC
*
2775658 CAAAATTTG-AAATTAAAAAAAAAAT
1 C-AAATTTGCAAATTAAAAAAAAAAC
2775683 CAAATTTGC
1 CAAATTTGC
2775692 CCCTTAAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 7 0.23
25 4 0.13
26 6 0.19
27 7 0.23
28 7 0.23
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (25 bp):
CAAATTTGCAAATTAAAAAAAAAAC
Found at i:2788502 original size:24 final size:24
Alignment explanation
Indices: 2788475--2788520 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2788465 TTTATAGAAG
* *
2788475 ATTTAATATTTATTAGTATAATAA
1 ATTTAACATTTATTAGCATAATAA
*
2788499 ATTTTACATTTATTAGCATAAT
1 ATTTAACATTTATTAGCATAAT
2788521 TTATTTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATTAGCATAATAA
Found at i:2795418 original size:144 final size:144
Alignment explanation
Indices: 2795238--2795517 Score: 506
Period size: 144 Copynumber: 1.9 Consensus size: 144
2795228 TGAAAGCCTG
* *
2795238 TTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGAGCCATT
1 TTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGAGCCATC
* *
2795303 AAGTTGGTTGCTTTGAAGGAGCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTG
66 AAGTTGGTTGCTTTGAAGAAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTG
2795368 GACCAACAAGACTA
131 GACCAACAAGACTA
* *
2795382 TTGGAGGATAGATTCAATGCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATC
1 TTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGAGCCATC
2795447 AAGTTGGTTGCTTTGAAGAAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTG
66 AAGTTGGTTGCTTTGAAGAAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTG
2795512 GACCAA
131 GACCAA
2795518 AAAACCAGTT
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 130 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (144 bp):
TTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGAGCCATC
AAGTTGGTTGCTTTGAAGAAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTG
GACCAACAAGACTA
Found at i:2796255 original size:41 final size:41
Alignment explanation
Indices: 2796204--2796344 Score: 237
Period size: 41 Copynumber: 3.4 Consensus size: 41
2796194 TATTGGATAT
* * * *
2796204 ATTAATTTCAAAGTCTTTAGTCTATTGTCTGACACATATTC
1 ATTAATTTCAAAGTCTTCAGTCAACTGTCTAACACATATTC
2796245 ATTAATTTCAAAGTCTTCAGTCAACTGTCTAACACATATTC
1 ATTAATTTCAAAGTCTTCAGTCAACTGTCTAACACATATTC
*
2796286 ATTAATTTCAAGGTCTTCAGTCAACTGTCTAACACATATTC
1 ATTAATTTCAAAGTCTTCAGTCAACTGTCTAACACATATTC
2796327 ATTAATTTCAAAGTCTTC
1 ATTAATTTCAAAGTCTTC
2796345 CTCTTTAGAA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.40
Consensus pattern (41 bp):
ATTAATTTCAAAGTCTTCAGTCAACTGTCTAACACATATTC
Found at i:2797228 original size:17 final size:18
Alignment explanation
Indices: 2797191--2797247 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
2797181 AATTATAAAG
2797191 AATATATAAAATTTATTA
1 AATATATAAAATTTATTA
*
2797209 AATATCATAAAATTT-TAA
1 AATAT-ATAAAATTTATTA
2797227 ATATATATAAAATATTATTA
1 A-ATATATAAAAT-TTATTA
2797247 A
1 A
2797248 TATGTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 15 0.45
19 15 0.45
20 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATATAAAATTTATTA
Found at i:2797478 original size:17 final size:17
Alignment explanation
Indices: 2797436--2797500 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
2797426 GCCCAACTTG
* *
2797436 GATTTTAATTTAAGTTT
1 GATTTAAATTTAAATTT
* *
2797453 GAATTAATTTTAAATTT
1 GATTTAAATTTAAATTT
2797470 -ATTTAAATTTAAATTT
1 GATTTAAATTTAAATTT
*
2797486 GTTTTAAATTTAAAT
1 GATTTAAATTTAAAT
2797501 ACATTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.35
17 26 0.65
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
GATTTAAATTTAAATTT
Found at i:2797479 original size:33 final size:33
Alignment explanation
Indices: 2797437--2797509 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
2797427 CCCAACTTGG
* * * **
2797437 ATTTTAATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
**
2797470 ATTTAAATTTAAATTTGTTTTAAATTTAAATAC
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
2797503 ATTTAAA
1 ATTTAAA
2797510 ATAATTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (33 bp):
ATTTAAATTTAAATTTGAATTAAATTTAAATAC
Found at i:2797484 original size:27 final size:27
Alignment explanation
Indices: 2797443--2797516 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
2797433 TTGGATTTTA
* *
2797443 ATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
**
2797470 ATTTAAATTTAAATTTGTTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
** * *
2797497 AAATACATTTAAAATAATTT
1 ATTTAAATTTAAATTAATTT
2797517 GAAACTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
ATTTAAATTTAAATTAATTTTAAATTT
Found at i:2797509 original size:16 final size:16
Alignment explanation
Indices: 2797456--2797509 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
2797446 TAAGTTTGAA
* *
2797456 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
2797472 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
2797489 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
2797505 TTAAA
1 TTAAA
2797510 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:2798282 original size:21 final size:23
Alignment explanation
Indices: 2798251--2798295 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
2798241 TTTTAAATGG
2798251 TATTAATTAATTTAA-ATAATAA
1 TATTAATTAATTTAAGATAATAA
2798273 TATT-ATTAATTTAATGATAATAA
1 TATTAATTAATTTAA-GATAATAA
2798296 AAAGAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAATTAATTTAAGATAATAA
Found at i:2799559 original size:30 final size:29
Alignment explanation
Indices: 2799467--2799618 Score: 91
Period size: 30 Copynumber: 5.2 Consensus size: 29
2799457 CTTGATTTCA
* * *
2799467 CCAAAAATTACCATTTTACCCCCGACCTT
1 CCAAAAATTACTATTTTACCCCCAACTTT
* * * *
2799496 CC-AAAA-TACCATTTTTAACCTCGA-TTT
1 CCAAAAATTACTA-TTTTACCCCCAACTTT
*
2799523 CACCAAAAATTACTATTTTGCCCCCAAACTTT
1 --CCAAAAATTACTATTTTACCCCC-AACTTT
* *
2799555 CC-AAAA-T-CTCATTTTAACCCCAATTTT
1 CCAAAAATTACT-ATTTTACCCCCAACTTT
* *
2799582 ACCAAAAATTACCATTTTACCCCTGAACTTT
1 -CCAAAAATTACTATTTTACCCC-CAACTTT
2799613 CCAAAA
1 CCAAAA
2799619 TCTCATTTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
27 14 0.15
28 26 0.27
29 12 0.13
30 29 0.31
31 11 0.12
32 3 0.03
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.32
Consensus pattern (29 bp):
CCAAAAATTACTATTTTACCCCCAACTTT
Found at i:2799588 original size:175 final size:175
Alignment explanation
Indices: 2799293--2799665 Score: 518
Period size: 175 Copynumber: 2.1 Consensus size: 175
2799283 CTTGAACTGT
* ** *
2799293 CCAAAAATTA-CATTTTTCCCCATAACTCTCAAAAATCCCATTTTAACCCCGATTTCACCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTCTCAAAAATACCATTTTAACCCCGATTTCACCAAAAA
*** *
2799357 TTACCATTTGACCATTGAACTTTCCAAAATCCCTTTTTAACCCCAATTTCACCAAAAATTACCAT
66 TTACCATTTGACCACCAAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCAT
* **
2799422 TTTGCCCCTGAACCTTCCAAAATCCCATTTTTAACCTTGATTTCA
131 TTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
2799467 CCAAAAATTACCATTTTACCCCCGACCT-TCCAAAATACCATTTTTAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTCTCAAAAATACCA-TTTTAACCCCGATTTCACCAAAA
* * * *
2799531 ATTACTATTTTG-CCCCCAAACTTTCCAAAATCTCATTTTAACCCCAATTTTACCAAAAATTACC
65 ATTACCA-TTTGACCACCAAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACC
* *
2799595 ATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCA
129 ATTTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
2799642 CCAAAAATTACCATTTCACCCCCG
1 CCAAAAATTACCATTTTACCCCCG
2799666 GGCATCCAAA
Statistics
Matches: 175, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
174 20 0.11
175 151 0.86
176 4 0.02
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.32
Consensus pattern (175 bp):
CCAAAAATTACCATTTTACCCCCGAACTCTCAAAAATACCATTTTAACCCCGATTTCACCAAAAA
TTACCATTTGACCACCAAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCAT
TTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:2799634 original size:30 final size:27
Alignment explanation
Indices: 2799544--2799634 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 27
2799534 ACTATTTTGC
2799544 CCCCAAACTTTCCAAAATCTCATTTTAA
1 CCCC-AACTTTCCAAAATCTCATTTTAA
*
2799572 CCCCAATTTTACCAAAAAT-TACCATTTT-A
1 CCCCAACTTT-CC-AAAATCT--CATTTTAA
2799601 CCCCTGAACTTTCCAAAATCTCATTTTTAA
1 CCCC--AACTTTCCAAAATCTCA-TTTTAA
2799631 CCCC
1 CCCC
2799635 GATTTCACCA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
27 5 0.10
28 9 0.17
29 19 0.37
30 14 0.27
31 5 0.10
ACGTcount: A:0.33, C:0.33, G:0.01, T:0.33
Consensus pattern (27 bp):
CCCCAACTTTCCAAAATCTCATTTTAA
Found at i:2799664 original size:117 final size:116
Alignment explanation
Indices: 2799293--2799657 Score: 493
Period size: 117 Copynumber: 3.1 Consensus size: 116
2799283 CTTGAACTGT
* * *
2799293 CCAAAAATTA-CATTTT-TCCCCATAACTCTCAAAAATCCCATTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTGCCCCCA-AACTTTCCAAAATCCCATTTTAACCCCGATTTCACCAAAA
* ** * *
2799356 ATTACCATTTGACCATTGAACTTTCCAAAATCCCTTTTTAACCCCAATTTCA
65 ATTACCATTTTACCCCTGAACTTTCCAAAATCCATTTTTAACCCCGATTTCA
** * **
2799408 CCAAAAATTACCATTTTGCCCCTGAACCTTCCAAAATCCCATTTTTAACCTTGATTTCACCAAAA
1 CCAAAAATTACCATTTTGCCCCCAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACCAAAA
* * *
2799473 ATTACCATTTTACCCCCG-ACCTTCCAAAATACCATTTTTAACCTCGATTTCA
65 ATTACCATTTTACCCCTGAACTTTCCAAAAT-CCATTTTTAACCCCGATTTCA
* * * *
2799525 CCAAAAATTACTATTTTGCCCCCAAACTTTCCAAAATCTCATTTTAACCCCAATTTTACCAAAAA
1 CCAAAAATTACCATTTTGCCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCAAAAA
2799590 TTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCA
66 TTACCATTTTACCCCTGAACTTTCCAAAATC-CATTTTTAACCCCGATTTCA
2799642 CCAAAAATTACCATTT
1 CCAAAAATTACCATTT
2799658 CACCCCCGGG
Statistics
Matches: 215, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
115 10 0.05
116 68 0.32
117 137 0.64
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (116 bp):
CCAAAAATTACCATTTTGCCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCTGAACTTTCCAAAATCCATTTTTAACCCCGATTTCA
Found at i:2799675 original size:58 final size:58
Alignment explanation
Indices: 2799293--2799665 Score: 448
Period size: 58 Copynumber: 6.4 Consensus size: 58
2799283 CTTGAACTGT
* ** * *
2799293 CCAAAAATTA-CATTTTTCCCCATAACTCTCAAAAATCCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAAT-CCATTTTTAACCCCGATTTCA
* *** * *
2799350 CCAAAAATTACCATTTGACCATTGAACTTTCCAAAATCCCTTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCATTTTTAACCCCGATTTCA
* * * **
2799408 CCAAAAATTACCATTTTGCCCCTGAACCTTCCAAAATCCCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAAT-CCATTTTTAACCCCGATTTCA
* *
2799467 CCAAAAATTACCATTTTACCCCCG-ACCTTCCAAAATACCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAAT-CCATTTTTAACCCCGATTTCA
* * * * *
2799525 CCAAAAATTACTATTTTGCCCCCAAACTTTCCAAAATCTCA-TTTTAACCCCAATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATC-CATTTTTAACCCCGATTTCA
*
2799583 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATC-CATTTTTAACCCCGATTTCA
*
2799642 CCAAAAATTACCATTTCACCCCCG
1 CCAAAAATTACCATTTTACCCCCG
2799666 GGCATCCAAA
Statistics
Matches: 272, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
57 12 0.04
58 171 0.63
59 89 0.33
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.32
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCATTTTTAACCCCGATTTCA
Found at i:2808095 original size:18 final size:18
Alignment explanation
Indices: 2808072--2808107 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2808062 AAAGCTAGCC
2808072 CAAAGGACAATTTCCCGT
1 CAAAGGACAATTTCCCGT
*
2808090 CAAAGGATAATTTCCCGT
1 CAAAGGACAATTTCCCGT
2808108 TACCTCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (18 bp):
CAAAGGACAATTTCCCGT
Found at i:2812187 original size:200 final size:200
Alignment explanation
Indices: 2811844--2812685 Score: 1292
Period size: 200 Copynumber: 4.2 Consensus size: 200
2811834 ATAAAACATT
* *
2811844 GAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAACACAAGCCAAT
1 GAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCCAAT
* * *
2811909 CTTCGAACCTAGCTTCTTGATGAGACACTGAGAAACAGGTCAAAGCAATAAAATGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCC
* * *
2811974 TGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATTCAAATAAGCGAATCAAAA
131 TGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
*
2812039 AAAGC
196 CAAGC
*
2812044 GAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAACACGAGCCAAT
1 GAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCCAAT
2812109 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCC
* *
2812174 TAATGAGATACAGAGAAGTGGACTAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
131 TGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
2812239 CAAGC
196 CAAGC
* * * *
2812244 AAGGCGATCATCTT-TCTAATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCTAA
1 GAGGCGGTCATCTTCT-TGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCCAA
* **
2812308 TCTTCGAACCCAGCTTCTTGATGAGACACTGAGACGCAGGTCGAAGCAATAAAATGGTTAGCTTC
65 TCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTC
* *
2812373 CTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGAGATCCATAGAAGCGAATCAAA
130 CTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAA
2812438 ACAAGC
195 ACAAGC
* * * *
2812444 GAGGCGGTCATCTTCCTGATGAGATAAAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAAT
1 GAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCCAAT
* * *
2812509 CTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATTAGCTTCC
66 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCC
* * * *
2812574 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTAAAA
131 TGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
*
2812639 C-AGAT
196 CAAG-C
* * * * * *
2812644 GATCGCGATCATCTTCCTGATGAGACATAGAGAAGAAGACCA
1 GA-GGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCA
2812686 GGTCAATGAA
Statistics
Matches: 593, Mismatches: 45, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
199 3 0.01
200 556 0.94
201 34 0.06
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (200 bp):
GAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCCAAT
CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCC
TGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAA
CAAGC
Found at i:2813039 original size:17 final size:17
Alignment explanation
Indices: 2812997--2813061 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
2812987 GCCCAACTTG
* *
2812997 GATTTTAATTTAAGTTT
1 GATTTAAATTTAAATTT
* *
2813014 GAATTAATTTTAAATTT
1 GATTTAAATTTAAATTT
2813031 -ATTTAAATTTAAATTT
1 GATTTAAATTTAAATTT
*
2813047 GTTTTAAATTTAAAT
1 GATTTAAATTTAAAT
2813062 ACATTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.35
17 26 0.65
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
GATTTAAATTTAAATTT
Found at i:2813040 original size:33 final size:33
Alignment explanation
Indices: 2812998--2813070 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
2812988 CCCAACTTGG
* * * **
2812998 ATTTTAATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
**
2813031 ATTTAAATTTAAATTTGTTTTAAATTTAAATAC
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
2813064 ATTTAAA
1 ATTTAAA
2813071 ATAATTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (33 bp):
ATTTAAATTTAAATTTGAATTAAATTTAAATAC
Found at i:2813045 original size:27 final size:27
Alignment explanation
Indices: 2813004--2813077 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
2812994 TTGGATTTTA
* *
2813004 ATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
**
2813031 ATTTAAATTTAAATTTGTTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
** * *
2813058 AAATACATTTAAAATAATTT
1 ATTTAAATTTAAATTAATTT
2813078 GAAACTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
ATTTAAATTTAAATTAATTTTAAATTT
Found at i:2813070 original size:16 final size:16
Alignment explanation
Indices: 2813017--2813070 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
2813007 TAAGTTTGAA
* *
2813017 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
2813033 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
2813050 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
2813066 TTAAA
1 TTAAA
2813071 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:2813853 original size:20 final size:21
Alignment explanation
Indices: 2813809--2813855 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2813799 TAAATATATA
2813809 TTAAATGTATTAACTAAAGTT
1 TTAAATGTATTAACTAAAGTT
*
2813830 TTAAATGGTATTAA-TTAA-TT
1 TTAAAT-GTATTAACTAAAGTT
2813850 TTAAAT
1 TTAAAT
2813856 AATAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 9 0.38
22 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (21 bp):
TTAAATGTATTAACTAAAGTT
Found at i:2814951 original size:30 final size:28
Alignment explanation
Indices: 2814917--2815191 Score: 131
Period size: 30 Copynumber: 9.4 Consensus size: 28
2814907 ATAACTCTCC
* *
2814917 AAAATCCCATTTTTAACCTCGATTTCACCA
1 AAAATACCA-TTTTAACCCCGATTT-ACCA
2814947 AAAATTACCATTTT-ACCCTCGAACTTT-CC-
1 AAAA-TACCATTTTAACCC-CG-A-TTTACCA
*
2814976 AAAAT-CCTTTTTTAACCCCGATTTCACCA
1 AAAATACC-ATTTTAACCCCGATTT-ACCA
** *
2815005 AAAATTACCATTTTGCCCCCGAACCTT-CC-
1 AAAA-TACCATTTTAACCCCG-A-TTTACCA
* *
2815034 AAAATCCCATTTTAACCCCGATTTCACTA
1 AAAATACCATTTTAACCCCGATTT-ACCA
2815063 AAAATTACCATTTT-ACCCCTGACTTT-CC-
1 AAAA-TACCATTTTAACCCC-GA-TTTACCA
*
2815091 AAAATACCATTTTTAACCTCGATTTTACCA
1 AAAATACCA-TTTTAACCCCGA-TTTACCA
** *
2815121 AAAATTACCATTTTGCCCCCAAACTTT-CC-
1 AAAA-TACCATTTTAACCCC-GA-TTTACCA
* *
2815150 AAAATCCCATTTTTTAACCTCGATTTCACCA
1 AAAATACCA--TTTTAACCCCGATTT-ACCA
2815181 AAAATTACCAT
1 AAAA-TACCAT
2815192 GGTAATTTTA
Statistics
Matches: 187, Mismatches: 27, Indels: 62
0.68 0.10 0.22
Matches are distributed among these distances:
26 5 0.03
27 9 0.05
28 43 0.23
29 40 0.21
30 57 0.30
31 24 0.13
32 9 0.05
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATACCATTTTAACCCCGATTTACCA
Found at i:2815013 original size:58 final size:58
Alignment explanation
Indices: 2814885--2815263 Score: 467
Period size: 58 Copynumber: 6.4 Consensus size: 58
2814875 CTTGAACTGT
** * * *
2814885 CCAAAAATTACTTTTTTACCCCATAACTCTCCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCC-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
2814944 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAAT-CCTTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCC-CGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* *
2815002 CCAAAAATTACCATTTTGCCCCCGAACCTTCCAAAATCCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * *
2815060 CTAAAAATTACCATTTTACCCCTG-ACTTTCCAAAATACCATTTTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCC-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
2815118 CCAAAAATTACCATTTTGCCCCCAAACTTTCCAAAATCCCATTTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCGAACTTTCCAAAATCCCA-TTTTTAACCCCGATTTCA
*
2815178 CCAAAAATTACCATGGTAATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCA
1 CCAAAAATTACC------ATTTTACCCC-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*
2815243 CCAAAAATTACCATTTCACCC
1 CCAAAAATTACCATTTTACCC
2815264 TCGGGCATCT
Statistics
Matches: 280, Mismatches: 25, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
57 18 0.06
58 115 0.41
59 63 0.22
60 30 0.11
65 33 0.12
66 21 0.08
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:2815104 original size:116 final size:117
Alignment explanation
Indices: 2814914--2815258 Score: 516
Period size: 116 Copynumber: 2.9 Consensus size: 117
2814904 CCCATAACTC
2814914 TCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTA-CCCTCGAACTTTCCAA
1 TCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCT-GAACTTTCCAA
* *
2814978 AATCCTTTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCCCGAACCT
65 AATCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCCCAAACCT
* *
2815031 TCCAAAATCCCA-TTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCCTG-ACTTTCCAAA
1 TCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTGAACTTTCCAAA
* * *
2815094 ATACCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTGCCCCCAAACTT
66 AT-CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCCCAAACCT
2815147 TCCAAAATCCCATTTTTTAACCTCGATTTCACCAAAAATTACCATGGTAATTTTACCCCTGAACT
1 TCCAAAATCCCA-TTTTTAACCTCGATTTCACCAAAAATTACC------ATTTTACCCCTGAACT
2815212 TTCCAAAATCTCATTTTTAACCCCGATTTCACCAAAAATTACCATTT
59 TTCCAAAATC-CATTTTTAACCCCGATTTCACCAAAAATTACCATTT
2815259 CACCCTCGGG
Statistics
Matches: 205, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
115 12 0.06
116 91 0.44
117 16 0.08
118 27 0.13
124 13 0.06
125 46 0.22
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (117 bp):
TCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTGAACTTTCCAAA
ATCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCCCAAACCT
Found at i:2817408 original size:3 final size:3
Alignment explanation
Indices: 2817400--2817425 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2817390 TCCATTCCAT
2817400 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
2817426 CATCATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2820035 original size:72 final size:72
Alignment explanation
Indices: 2819909--2820123 Score: 304
Period size: 72 Copynumber: 3.0 Consensus size: 72
2819899 TGGTCATATT
* * * * * *
2819909 CCTTATACTTTGGGTAAATTAACCAATTTGGAGCTGTTGGACCTATCCAATAACCAAATCACTGG
1 CCTTTTACATTGGGTAAATTAACCAAATTGAAACAGTTGGACCTATCCAATAACCAAATCACTGG
2819974 AACAATC
66 AACAATC
* * * *
2819981 CCTTTTACCTTGGGTAAATTAACCAAATTGAAACAATTGGGCCTATCCAATAACCAAATTACTGG
1 CCTTTTACATTGGGTAAATTAACCAAATTGAAACAGTTGGACCTATCCAATAACCAAATCACTGG
**
2820046 TCCAATC
66 AACAATC
* *
2820053 CCTTTCACATTGGGTAAATTAACCAAATTGAAACAGTTGGACCTATCCGATAACCAAATCACTGG
1 CCTTTTACATTGGGTAAATTAACCAAATTGAAACAGTTGGACCTATCCAATAACCAAATCACTGG
2820118 AACAAT
66 AACAAT
2820124 TCCTCTAACT
Statistics
Matches: 124, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 124 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (72 bp):
CCTTTTACATTGGGTAAATTAACCAAATTGAAACAGTTGGACCTATCCAATAACCAAATCACTGG
AACAATC
Found at i:2822136 original size:24 final size:24
Alignment explanation
Indices: 2822109--2822172 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 24
2822099 GGATCGAAAT
*
2822109 TAAAATTATATATTTTTATGATAA
1 TAAAATTATATATTTTTATCATAA
* *
2822133 TAAAA--ATATA-ATTTATCATTA
1 TAAAATTATATATTTTTATCATAA
* *
2822154 TAATATTCTATATTTTTAT
1 TAAAATTATATATTTTTAT
2822173 AAATTTTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 12 0.39
22 5 0.16
23 4 0.13
24 10 0.32
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
TAAAATTATATATTTTTATCATAA
Found at i:2828765 original size:21 final size:20
Alignment explanation
Indices: 2828741--2828786 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2828731 GAAAAGTATC
*
2828741 TACAAAAAGAATCTTTAAGAT
1 TACAAAAA-AATCTCTAAGAT
*
2828762 TACAATAAAATCTCTAAGAT
1 TACAAAAAAATCTCTAAGAT
*
2828782 CACAA
1 TACAA
2828787 GGATCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (20 bp):
TACAAAAAAATCTCTAAGAT
Found at i:2831438 original size:58 final size:58
Alignment explanation
Indices: 2831373--2831620 Score: 297
Period size: 58 Copynumber: 4.2 Consensus size: 58
2831363 ACCCGGGCGC
* * * * *
2831373 AAAATGGTAATTTTAGTTAAAAT-TGGGTCAAAAATAGG-ATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTAAAATCAGGGTCAAAAAT-GGAATTTTGAAAAATT-AGGGGT
* *
2831431 AAAATGGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTGAAAAGCTT-GGGGT
1 AAAATGGTAATTTTTGGTAAAATCAGGGTCAAAAATGGAATTTTGAAAA-ATTAGGGGT
* * *
2831489 AAAATGGTAATTTTTGGTGAAATCGGGGTAAAAAATGGAATTTTAGAAAAATATAGGGGT
1 AAAATGGTAATTTTTGGTAAAATCAGGGTCAAAAATGGAATTTT-GAAAAAT-TAGGGGT
* * *
2831549 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAATTTAGGGGT
1 AAAATGGTAATTTTTGGTAAAATCAGGGTCAAAAATGGAATTTT-GAAAAATTAGGGGT
2831608 AAAAT-GTAATTTT
1 AAAATGGTAATTTT
2831621 AGAAAGTTTT
Statistics
Matches: 169, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
58 77 0.46
59 37 0.22
60 55 0.33
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTAAAATCAGGGTCAAAAATGGAATTTTGAAAAATTAGGGGT
Found at i:2831443 original size:29 final size:29
Alignment explanation
Indices: 2831411--2831679 Score: 129
Period size: 29 Copynumber: 9.2 Consensus size: 29
2831401 CAAAAATAGG
2831411 ATTTTGGAAAGTTCAGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCAGGGGTAAAATGGTA
* *
2831440 ATTTTTGGTAAA-ATCA-AGGTCAAAAATGG-A
1 A-TTTTGG-AAAGTTCAGGGGT--AAAATGGTA
*
2831470 ATTTTGAAAAGCTT--GGGGTAAAATGGTA
1 ATTTTGGAAAG-TTCAGGGGTAAAATGGTA
2831498 ATTTTTGGTGAAA--TC-GGGGTAAAAAATGG-A
1 A-TTTT-G-GAAAGTTCAGGGGT--AAAATGGTA
* *
2831528 ATTTTAGAAAAATAT-AGGGGTAAAATGGTA
1 ATTTT-GGAAAGT-TCAGGGGTAAAATGGTA
*
2831558 ATTTTTGGTGAAA--TCAGGGTTAAAAATGG-A
1 A-TTTT-G-GAAAGTTCAGGGGT-AAAATGGTA
* *
2831588 ATTTTGGAAAATTTAGGGGTAAAAT-GTA
1 ATTTTGGAAAGTTCAGGGGTAAAATGGTA
* * * *
2831616 ATTTTAGAAAGTTTTAGGGTTAAAAT-ATA
1 ATTTTGGAAAG-TTCAGGGGTAAAATGGTA
* *
2831645 ATTTTGGAAAAGTTTAGGGGCCAAAAT-GTA
1 ATTTTGG-AAAGTTCAGGGG-TAAAATGGTA
2831675 ATTTT
1 ATTTT
2831680 CAAAAAGTTT
Statistics
Matches: 190, Mismatches: 21, Indels: 57
0.71 0.08 0.21
Matches are distributed among these distances:
27 12 0.06
28 25 0.13
29 72 0.38
30 40 0.21
31 38 0.20
32 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (29 bp):
ATTTTGGAAAGTTCAGGGGTAAAATGGTA
Found at i:2831659 original size:30 final size:30
Alignment explanation
Indices: 2831573--2831778 Score: 165
Period size: 30 Copynumber: 6.9 Consensus size: 30
2831563 TGGTGAAATC
2831573 AGGGTTAAAA-ATGGAATTTTGGAAAA--TTT
1 AGGGTTAAAATAT--AATTTTGGAAAAGTTTT
* * *
2831602 AGGGGTAAAATGTAATTTTAG-AAAGTTTT
1 AGGGTTAAAATATAATTTTGGAAAAGTTTT
2831631 AGGGTTAAAATATAATTTTGGAAAAG-TTT
1 AGGGTTAAAATATAATTTTGGAAAAGTTTT
** * **
2831660 AGGGGCCAAAATGTAATTTTCAAAAAGTTTT
1 A-GGGTTAAAATATAATTTTGGAAAAGTTTT
* * * *
2831691 AGAGATAAAATATAATTTTGGAGAAGTTTA
1 AGGGTTAAAATATAATTTTGGAAAAGTTTT
* *
2831721 AGGGTTAAAATGTAATTTT-TAGAAAGTTTT
1 AGGGTTAAAATATAATTTTGGA-AAAGTTTT
* * *
2831751 -GAGGTCAAAATATAATTTTTGAGAAGTT
1 AG-GGTTAAAATATAATTTTGGAAAAGTT
2831779 CGGGGACCTA
Statistics
Matches: 139, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
27 3 0.02
28 7 0.05
29 36 0.26
30 88 0.63
31 5 0.04
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (30 bp):
AGGGTTAAAATATAATTTTGGAAAAGTTTT
Found at i:2831671 original size:118 final size:117
Alignment explanation
Indices: 2831373--2831679 Score: 304
Period size: 118 Copynumber: 2.6 Consensus size: 117
2831363 ACCCGGGCGC
* * * * *
2831373 AAAATGGTAATTTTAGTTA-AAAT-TGGGTCAAAAATAGGATTTTGG-AAAGTTCAGGGGTAAAA
1 AAAATGGTAATTTTAG-AAGAAATAGGGGTAAAAAAT-GAATTTTGGAAAAGTTTAGGGGTAAAA
2831435 TGGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTGAAAAGCTTGGGGT
64 TGGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTGAAAAGCTTGGGGT
* ** * * * *
2831489 AAAATGGTAATTTTTGGTGAAATCGGGGTAAAAAATGGAATTTTAGAAAAATATAGGGGTAAAAT
1 AAAATGGTAATTTTAGAAGAAATAGGGGTAAAAAAT-GAATTTTGGAAAAGTTTAGGGGTAAAAT
* * * *
2831554 GGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAA-TTTAGGGGT
65 GGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTT-GAAAAGCTT-GGGGT
*** * * *
2831608 AAAAT-GTAATTTTAGAAAGTTTTAGGGTTAAAATAT-AATTTTGGAAAAGTTTAGGGGCCAAAA
1 AAAATGGTAATTTTAG-AAGAAATAGGGGTAAAAAATGAATTTTGGAAAAGTTTAGGGG-TAAAA
2831671 T-GTAATTTT
64 TGGTAATTTT
2831680 CAAAAAGTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
116 19 0.12
117 43 0.28
118 67 0.43
119 27 0.17
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.33
Consensus pattern (117 bp):
AAAATGGTAATTTTAGAAGAAATAGGGGTAAAAAATGAATTTTGGAAAAGTTTAGGGGTAAAATG
GTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTGAAAAGCTTGGGGT
Found at i:2831700 original size:60 final size:58
Alignment explanation
Indices: 2831587--2831778 Score: 244
Period size: 60 Copynumber: 3.3 Consensus size: 58
2831577 TTAAAAATGG
* *
2831587 AATTTTGGAAAA-TTTAGGGGTAAAATGTAATTTTAGAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAAGTTTAGGGGTAAAATGTAATTTTAGAAAGTTTTAGAGATAAAATAT
* *
2831644 AATTTTGGAAAAGTTTAGGGGCCAAAATGTAATTTTCAAAAAGTTTTAGAGATAAAATAT
1 AATTTTGGAAAAGTTTAGGGG-TAAAATGTAATTTT-AGAAAGTTTTAGAGATAAAATAT
* * *
2831704 AATTTTGGAGAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTT-GAGGTCAAAATAT
1 AATTTTGGAAAAGTTT-AGGGGTAAAATGTAA-TTTTAGAAAGTTTTAGAGAT-AAAATAT
* *
2831764 AATTTTTGAGAAGTT
1 AATTTTGGAAAAGTT
2831779 CGGGGACCTA
Statistics
Matches: 119, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
57 12 0.10
58 8 0.07
59 17 0.14
60 74 0.62
61 8 0.07
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (58 bp):
AATTTTGGAAAAGTTTAGGGGTAAAATGTAATTTTAGAAAGTTTTAGAGATAAAATAT
Found at i:2831778 original size:90 final size:89
Alignment explanation
Indices: 2831607--2831769 Score: 220
Period size: 90 Copynumber: 1.8 Consensus size: 89
2831597 AATTTAGGGG
* * * *
2831607 TAAAATGTAATTTTAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGCCAAAAT
1 TAAAATATAATTTTAGAAAGTTTAAGGGTTAAAATATAATTTTAGAAAAGTTTAGAGGCCAAAAT
*
2831672 GTAATTTTCAAAAAGTTTTAGAGA
66 ATAATTTTCAAAAAGTTTTAGAGA
* * * *
2831696 TAAAATATAATTTTGGAGAAGTTTAAGGGTTAAAATGTAATTTTTAG-AAAGTTTTGAGGTCAAA
1 TAAAATATAATTTTAGA-AAGTTTAAGGGTTAAAATATAA-TTTTAGAAAAGTTTAGAGGCCAAA
2831760 ATATAATTTT
64 ATATAATTTT
2831770 TGAGAAGTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
89 15 0.24
90 43 0.68
91 5 0.08
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.38
Consensus pattern (89 bp):
TAAAATATAATTTTAGAAAGTTTAAGGGTTAAAATATAATTTTAGAAAAGTTTAGAGGCCAAAAT
ATAATTTTCAAAAAGTTTTAGAGA
Found at i:2832914 original size:21 final size:21
Alignment explanation
Indices: 2832877--2832934 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
2832867 TTATTAATTA
2832877 TTATTATTTAATATTAAAACAT
1 TTATTA-TTAATATTAAAACAT
* *
2832899 TTATTATTAGTATTAAAGCAT
1 TTATTATTAATATTAAAACAT
2832920 TTATTA-TAATTATTA
1 TTATTATTAA-TATTA
2832935 TTAATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 24 0.75
22 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (21 bp):
TTATTATTAATATTAAAACAT
Found at i:2832945 original size:24 final size:23
Alignment explanation
Indices: 2832862--2832947 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 23
2832852 TCCCCCTTTT
*
2832862 TATTATTATTAAT-TA-TTATTA
1 TATTATTATTAATACATTTATTA
* *
2832883 T-TTAATATTAAAACATTTA-T-
1 TATTATTATTAATACATTTATTA
*
2832903 TATTAGTATTAA-AGCATTTATTA
1 TATTATTATTAATA-CATTTATTA
*
2832926 TAATTATTATTAATATATTTAT
1 T-ATTATTATTAATACATTTAT
2832948 CATAAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
20 11 0.22
21 18 0.35
22 4 0.08
23 1 0.02
24 16 0.31
25 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTATTATTAATACATTTATTA
Found at i:2833683 original size:17 final size:17
Alignment explanation
Indices: 2833661--2833733 Score: 85
Period size: 17 Copynumber: 4.3 Consensus size: 17
2833651 CTTTATTTAA
*
2833661 TTAAATTTATAATAATT
1 TTAAATTTATAATAAAT
*
2833678 TTAAATTTATATTAAAT
1 TTAAATTTATAATAAAT
*
2833695 CTAAATTTA-AATTAAAT
1 TTAAATTTATAA-TAAAT
* *
2833712 TTAATTTTAAAATAAAT
1 TTAAATTTATAATAAAT
2833729 TTAAA
1 TTAAA
2833734 ATAATTTGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
16 1 0.02
17 44 0.94
18 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATTTATAATAAAT
Found at i:2833710 original size:11 final size:11
Alignment explanation
Indices: 2833655--2833715 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
2833645 ATTGGACTTT
2833655 ATTT-AATTAA
1 ATTTAAATTAA
2833665 ATTTATAA-TAA
1 ATTTA-AATTAA
* *
2833676 TTTTAAATT-T
1 ATTTAAATTAA
2833686 ATATTAAATCTAA
1 AT-TTAAAT-TAA
2833699 ATTTAAATTAA
1 ATTTAAATTAA
2833710 ATTTAA
1 ATTTAA
2833716 TTTTAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 7 0.17
11 23 0.56
12 9 0.22
13 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:2833720 original size:6 final size:6
Alignment explanation
Indices: 2833677--2833733 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
2833667 TTATAATAAT
* * *
2833677 TTTAAA TTTATA -TTAAA TCTAAA TTTAAA -TTAAA TTTAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
2833723 -ATAAA TTTAAA
1 TTTAAA TTTAAA
2833734 ATAATTTGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:2834283 original size:51 final size:51
Alignment explanation
Indices: 2834223--2834583 Score: 311
Period size: 51 Copynumber: 7.1 Consensus size: 51
2834213 CGACTTAGGC
* * *
2834223 CTTTCCCTTTTGTGTTTTTGTGGTACTGGATCCGCCGTTGCGGTCTTAAAT
1 CTTTCCCTTTCGTGTTTTTGAGGTACTGGATCCGCCGTTGCGGTCTTAGAT
* * ** * *
2834274 CTTTCCCTTTCATGTTTCTGAGGTACACGATCCGCCGTTGC-GACTTAGAC
1 CTTTCCCTTTCGTGTTTTTGAGGTACTGGATCCGCCGTTGCGGTCTTAGAT
* * *
2834324 CTTTCCCTTTCGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGAT
1 CTTTCCCTTTCGTGTTTTTGAGGTACTGGATCCGCCGTTGCGGTCTTAGAT
* * * * * * * *
2834375 CTTTCCCTTCCATGCTTCTGAGGTACACGG-TCCGCCATTGC-GACTTAGAC
1 CTTTCCCTTTCGTGTTTTTGAGGTAC-TGGATCCGCCGTTGCGGTCTTAGAT
* * * *
2834425 CTTTCCCTTTTTGTGTTTTTGTGGTACTGGATCCGTCGTTACGGTCTTAGAT
1 CTTTCCC-TTTCGTGTTTTTGAGGTACTGGATCCGCCGTTGCGGTCTTAGAT
* * * * * * *
2834477 CTTTCCCTTTCATATTTTTGAGGTACACGG-TTCACCGTTGC-GACTTAGAC
1 CTTTCCCTTTCGTGTTTTTGAGGTAC-TGGATCCGCCGTTGCGGTCTTAGAT
* * * * * *
2834527 CTTT-CCTTTTGTGTTTTTGCGGTATTAGATCTGCCGCTGCGGTCTTAGAT
1 CTTTCCCTTTCGTGTTTTTGAGGTACTGGATCCGCCGTTGCGGTCTTAGAT
*
2834577 ATTTCCC
1 CTTTCCC
2834584 GTTGTATTTC
Statistics
Matches: 237, Mismatches: 64, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
48 1 0.00
49 23 0.10
50 77 0.32
51 118 0.50
52 18 0.08
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.41
Consensus pattern (51 bp):
CTTTCCCTTTCGTGTTTTTGAGGTACTGGATCCGCCGTTGCGGTCTTAGAT
Found at i:2834318 original size:101 final size:101
Alignment explanation
Indices: 2834178--2834583 Score: 537
Period size: 101 Copynumber: 4.0 Consensus size: 101
2834168 GTGGATTCGA
* * ** * *
2834178 CCTTTCATGTTTCTAAGGTAC-CGGGTTCGTTGTTACGACTTAGGCCTTTCCCTTTTGTGTTTTT
1 CCTTTCATGTTTCTGAGGTACAC-GGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTGTTTTT
* *
2834242 GTGGTACTGGATCCGCCGTTGCGGTCTTAAATCTTTC
65 GCGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTC
* *
2834279 CCTTTCATGTTTCTGAGGTACACGATCCGCCGTTGCGACTTAGACCTTTCCCTTTCGTGTTTTTG
1 CCTTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTGTTTTTG
* *
2834344 CGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTC
66 CGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTC
* * *
2834380 CCTTCCATGCTTCTGAGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCCTTTTTGTGTTTTT
1 CCTTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCC-TTTTGTGTTTTT
* * *
2834445 GTGGTACTGGATCCGTCGTTACGGTCTTAGATCTTTC
65 GCGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTC
* * * *
2834482 CCTTTCATATTTTTGAGGTACACGGTTCACCGTTGCGACTTAGACCTTT-CCTTTTGTGTTTTTG
1 CCTTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTGTTTTTG
* * * * *
2834546 CGGTATTAGATCTGCCGCTGCGGTCTTAGATATTTC
66 CGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTC
2834582 CC
1 CC
2834584 GTTGTATTTC
Statistics
Matches: 266, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
100 43 0.16
101 137 0.52
102 86 0.32
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.40
Consensus pattern (101 bp):
CCTTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTGTTTTTG
CGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTC
Found at i:2845853 original size:28 final size:27
Alignment explanation
Indices: 2845821--2846062 Score: 134
Period size: 28 Copynumber: 8.4 Consensus size: 27
2845811 TTGGTTGAAA
2845821 TTGGGTCAAAAATGGAATTTTGGAAAGT
1 TTGGGTC-AAAATGGAATTTTGGAAAGT
*** * **
2845849 TTGGGGGTAAATGGTAATTTTTGATAAAA
1 TTGGGTCAAAATGG-AATTTTGGA-AAGT
* *
2845878 TCGAGGTTAAAAATGGAATTTTGGAAAGT
1 TTG-GG-TCAAAATGGAATTTTGGAAAGT
* *
2845907 TTGGGGT-AAAATGGTAATTTTTGTAAAAT
1 TT-GGGTCAAAATGG-AA-TTTTGGAAAGT
*
2845936 TGGGGTCAAAATGGAATTTTGGAAAGTT
1 TTGGGTCAAAATGGAATTTTGGAAAG-T
*
2845964 TTGGGGT--AAATGGTATTTTTTGGTGAAA-T
1 TT-GGGTCAAAATGG-A-ATTTT-G-GAAAGT
**
2845993 CGGGGTCAAAAATGGAATTTTGGAAAGT
1 TTGGGTC-AAAATGGAATTTTGGAAAGT
* *
2846021 TTAGGGGT-AAAATGTAATTTTAGAAAGTT
1 TT--GGGTCAAAATGGAATTTTGGAAAG-T
2846050 TTGGGGTCAAAAT
1 TT-GGGTCAAAAT
2846063 ATATTTTTGA
Statistics
Matches: 164, Mismatches: 28, Indels: 43
0.70 0.12 0.18
Matches are distributed among these distances:
27 31 0.19
28 53 0.32
29 47 0.29
30 17 0.10
31 16 0.10
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (27 bp):
TTGGGTCAAAATGGAATTTTGGAAAGT
Found at i:2845870 original size:29 final size:29
Alignment explanation
Indices: 2845795--2846159 Score: 183
Period size: 29 Copynumber: 12.6 Consensus size: 29
2845785 GGATACTCGA
2845795 GGGTAAAATGGTAATTTTGGTTGAAA--TTGG
1 GGGTAAAATGGTAATTTT-G--GAAAGTTTGG
***
2845825 GTCAAAAATGG-AATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTGGAAAGTTTGG
* ** * *
2845853 GGGT-AAATGGTAATTTTTGATAAAATCGA
1 GGGTAAAATGGTAATTTTGGA-AAGTTTGG
*
2845882 GGTTAAAAATGG-AATTTTGGAAAGTTT-G
1 GGGT-AAAATGGTAATTTTGGAAAGTTTGG
* *
2845910 GGGTAAAATGGTAATTTTTGTAAA-ATT-G
1 GGGTAAAATGGTAA-TTTTGGAAAGTTTGG
*
2845938 GGGTCAAAATGG-AATTTTGGAAAGTTTTG
1 GGGT-AAAATGGTAATTTTGGAAAGTTTGG
* *
2845967 GGGT-AAATGGTATTTTTTGGTGAAA---TCG
1 GGGTAAAATGGTA-ATTTT-G-GAAAGTTTGG
*
2845995 GGGTCAAAAATGG-AATTTTGGAAAGTTTAG
1 GGGT--AAAATGGTAATTTTGGAAAGTTTGG
* *
2846025 GGGTAAAAT-GTAATTTTAGAAAGTTTTG
1 GGGTAAAATGGTAATTTTGGAAAGTTTGG
* * * *
2846053 GGGTCAAAAT-ATATTTTTGAAAAAGTTTAG
1 GGGT-AAAATGGTAATTTTG-GAAAGTTTGG
* * *
2846083 GGGAAAAAT-GTAATTTTTAGAAAGTTTTAG
1 GGGTAAAATGGTAA-TTTTGGAAAG-TTTGG
** *
2846113 GATTAAAAT-ATAATTTTGGAGAAGTTTAGG
1 GGGTAAAATGGTAATTTTGGA-AAGTTT-GG
*
2846143 GGTTAAAAT-GTAATTTT
1 GGGTAAAATGGTAATTTT
2846160 CAAAAAGTTT
Statistics
Matches: 261, Mismatches: 46, Indels: 56
0.72 0.13 0.15
Matches are distributed among these distances:
26 4 0.02
27 32 0.12
28 62 0.24
29 75 0.29
30 72 0.28
31 16 0.06
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTGGAAAGTTTGG
Found at i:2845891 original size:58 final size:56
Alignment explanation
Indices: 2845795--2846041 Score: 322
Period size: 58 Copynumber: 4.3 Consensus size: 56
2845785 GGATACTCGA
* * *
2845795 GGGTAAAATGGTAATTTTGGTTGAAATTGGGTCAAAAATGGAATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTG-TAAAATCGGGTCAAAAATGGAATTTTGGAAAGTTT-G
*
2845853 GGGT-AAATGGTAATTTTTGATAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGTAAAATGGTAATTTTTG-TAAAATCG-GGTCAAAAATGGAATTTTGGAAAGTTTG
*
2845910 GGGTAAAATGGTAATTTTTGTAAAATTGGGGTC-AAAATGGAATTTTGGAAAGTTTTG
1 GGGTAAAATGGTAATTTTTGTAAAA-TCGGGTCAAAAATGGAATTTTGGAAAG-TTTG
* *
2845967 GGGT-AAATGGTATTTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTT-GTAAAATC-GGGTCAAAAATGGAATTTTGGAAAGTTT-G
2846025 GGGTAAAAT-GTAATTTT
1 GGGTAAAATGGTAATTTT
2846042 AGAAAGTTTT
Statistics
Matches: 169, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
56 33 0.20
57 54 0.32
58 78 0.46
59 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.36
Consensus pattern (56 bp):
GGGTAAAATGGTAATTTTTGTAAAATCGGGTCAAAAATGGAATTTTGGAAAGTTTG
Found at i:2845984 original size:114 final size:116
Alignment explanation
Indices: 2845795--2846041 Score: 385
Period size: 114 Copynumber: 2.2 Consensus size: 116
2845785 GGATACTCGA
*
2845795 GGGTAAAATGGTAATTTTGGTTGAAATTGGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAA
1 GGGTAAAATGGTAATTTTGGTTAAAATTGGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAA
*
2845860 TGGTAATTTTTGATAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT-G
66 TGGTAATTTTTGATAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAG
* *
2845910 GGGTAAAATGGTAATTTTTG-TAAAATTGGGGTC-AAAATGGAATTTTGGAAAGTTTTGGGGTAA
1 GGGTAAAATGGTAATTTTGGTTAAAATT-GGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAA
* * * *
2845973 ATGGTATTTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAG
65 ATGGTAATTTTTGATAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAG
2846025 GGGTAAAAT-GTAATTTT
1 GGGTAAAATGGTAATTTT
2846042 AGAAAGTTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
114 88 0.72
115 34 0.28
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.36
Consensus pattern (116 bp):
GGGTAAAATGGTAATTTTGGTTAAAATTGGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAA
TGGTAATTTTTGATAAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAG
Found at i:2846056 original size:58 final size:58
Alignment explanation
Indices: 2845823--2846159 Score: 288
Period size: 58 Copynumber: 5.8 Consensus size: 58
2845813 GGTTGAAATT
* * ** *
2845823 GGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT-AAATGGTAATTTTTGATAAAATCG
1 GGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTAGA-AATTTTG
* * * *
2845881 AGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAATGGTAATTTTTGTAAA-ATTG
1 GGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTAG-AAATTTTG
* * * *
2845938 GGGTC-AAAATGGAATTTTGGAAAGTTTTGGGGT-AAATGGTATTTTTTGGTGAAA--TCG
1 GGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTA-ATTTT--AGAAATTTTG
2845995 GGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAT-GTAATTTTAGAAAGTTTTG
1 GGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTAGAAA-TTTTG
* * * *
2846053 GGGTCAAAATAT--ATTTTTGAAAAAGTTTAGGGGAAAAAT-GTAATTTTTAGAAAGTTTTA
1 GGGTCAAAA-ATGGAATTTTG-GAAAGTTTAGGGGTAAAATGGTAA-TTTTAGAAA-TTTTG
* *
2846112 GGATTAAAATAT--AATTTTGGAGAAGTTTAGGGGTTAAAAT-GTAATTTT
1 GGGTCAAAA-ATGGAATTTTGGA-AAGTTTAGGGG-TAAAATGGTAATTTT
2846160 CAAAAAGTTT
Statistics
Matches: 243, Mismatches: 20, Indels: 31
0.83 0.07 0.11
Matches are distributed among these distances:
55 4 0.02
56 30 0.12
57 37 0.15
58 109 0.45
59 54 0.22
60 9 0.04
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (58 bp):
GGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTAGAAATTTTG
Found at i:2846080 original size:30 final size:29
Alignment explanation
Indices: 2846016--2846198 Score: 147
Period size: 30 Copynumber: 6.2 Consensus size: 29
2846006 GGAATTTTGG
* *
2846016 AAAGTTTAGGGG-TAAAATGTAATTTTAG
1 AAAGTTTAGGGGTTAAAATATAATTTTAA
* * *
2846044 AAAGTTTTGGGGTCAAAATATATTTTTGAA
1 AAAGTTTAGGGGTTAAAATATAATTTT-AA
* * *
2846074 AAAGTTTAGGGG-AAAAATGTAATTTTTAG
1 AAAGTTTAGGGGTTAAAATATAA-TTTTAA
* *
2846103 AAAGTTTTA-GGATTAAAATATAATTTTGGA
1 AAAG-TTTAGGGGTTAAAATATAATTTT-AA
* *
2846133 GAAGTTTAGGGGTTAAAATGTAATTTTCAA
1 AAAGTTTAGGGGTTAAAATATAATTTT-AA
* * *
2846163 AAAGTTTTGAGGTTAAAATATGATTTATAA
1 AAAGTTTAGGGGTTAAAATATAATTT-TAA
*
2846193 GAAGTT
1 AAAGTT
2846199 CGGGGACCTT
Statistics
Matches: 121, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
28 11 0.09
29 33 0.27
30 76 0.63
31 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.21, T:0.38
Consensus pattern (29 bp):
AAAGTTTAGGGGTTAAAATATAATTTTAA
Found at i:2846196 original size:60 final size:57
Alignment explanation
Indices: 2846009--2846198 Score: 224
Period size: 59 Copynumber: 3.2 Consensus size: 57
2845999 CAAAAATGGA
* * *
2846009 ATTTTGGA-AAGTTTAGGGGTAAAATGTAATTTTAGAAAGTTTTGGGGTCAAAATAT
1 ATTTTGAAGAAGTTTAGGGGTAAAATGTAATTTTAGAAAGTTTTGAGGTTAAAATAT
* *
2846065 ATTTTTGAAAAAGTTTAGGGGAAAAATGTAATTTTTAGAAAGTTTT-AGGATTAAAATAT
1 A-TTTTGAAGAAGTTTAGGGGTAAAATGTAA-TTTTAGAAAGTTTTGAGG-TTAAAATAT
* *
2846124 AATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTTCAAAAAGTTTTGAGGTTAAAATAT
1 -ATTTTGAAGAAGTTTAGGGG-TAAAATGTAATTTT-AGAAAGTTTTGAGGTTAAAATAT
2846184 GATTTAT-AAGAAGTT
1 -ATTT-TGAAGAAGTT
2846199 CGGGGACCTT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
56 1 0.01
57 6 0.05
58 22 0.19
59 43 0.37
60 39 0.34
61 4 0.03
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (57 bp):
ATTTTGAAGAAGTTTAGGGGTAAAATGTAATTTTAGAAAGTTTTGAGGTTAAAATAT
Found at i:2847054 original size:14 final size:15
Alignment explanation
Indices: 2847026--2847054 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2847016 AAACCAAAAC
2847026 CCAGATCTGGGAAAT
1 CCAGATCTGGGAAAT
2847041 CCAGATCT-GGAAAT
1 CCAGATCTGGGAAAT
2847055 TTTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (15 bp):
CCAGATCTGGGAAAT
Found at i:2847333 original size:21 final size:21
Alignment explanation
Indices: 2847300--2847353 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
2847290 TTATTATTAA
2847300 TATT-TAA-TATTAAAACATT
1 TATTATAATTATTAAAACATT
* *
2847319 TATTATTATTATTAAAGCATT
1 TATTATAATTATTAAAACATT
2847340 TATTATAATTATTA
1 TATTATAATTATTA
2847354 TTAATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.13
20 2 0.07
21 24 0.80
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TATTATAATTATTAAAACATT
Found at i:2847350 original size:24 final size:24
Alignment explanation
Indices: 2847293--2847366 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
2847283 TTATTAATTA
* *
2847293 TTATTAATATTTAATATTAAAACAT
1 TTATT-ATAATTATTATTAAAACAT
*
2847318 TTA-T-T-ATTATTATTAAAGCAT
1 TTATTATAATTATTATTAAAACAT
* *
2847339 TTATTATAATTATTATTAATATAT
1 TTATTATAATTATTATTAAAACAT
2847363 TTAT
1 TTAT
2847367 CGTAAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
21 16 0.40
22 2 0.05
23 1 0.03
24 18 0.45
25 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (24 bp):
TTATTATAATTATTATTAAAACAT
Found at i:2847366 original size:21 final size:22
Alignment explanation
Indices: 2847279--2847366 Score: 54
Period size: 21 Copynumber: 4.0 Consensus size: 22
2847269 CCCCTTTTTT
* *
2847279 ATTATTATTAATTATTATTAATA
1 ATTATTATTAAGTA-TATTTATA
* * * * *
2847302 TTTAATATTAA-AACATTTATT
1 ATTATTATTAAGTATATTTATA
* *
2847323 ATTATTATTAAAGCATTTATTATA
1 ATTATTATT-AAGTATAT-TTATA
2847347 ATTATTATTAA-TATATTTAT
1 ATTATTATTAAGTATATTTAT
2847367 CGTAAATATT
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
21 16 0.33
22 6 0.12
23 13 0.27
24 13 0.27
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTATTATTAAGTATATTTATA
Found at i:2848031 original size:13 final size:13
Alignment explanation
Indices: 2848022--2848046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2848012 CAATTGGGCT
2848022 TGTAAATTGGACA
1 TGTAAATTGGACA
2848035 TGTAAATTGGAC
1 TGTAAATTGGAC
2848047 TTTATTTAAT
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:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (13 bp):
TGTAAATTGGACA
Found at i:2848078 original size:17 final size:17
Alignment explanation
Indices: 2848056--2848098 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2848046 CTTTATTTAA
*
2848056 TTAAATTTATAATAATT
1 TTAAATTTATAATAAAT
*
2848073 TTAAATTTATATTAAAT
1 TTAAATTTATAATAAAT
*
2848090 CTAAATTTA
1 TTAAATTTA
2848099 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTTATAATAAAT
Found at i:2848087 original size:11 final size:11
Alignment explanation
Indices: 2848073--2848116 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
2848063 TATAATAATT
*
2848073 TTAAATTTATA
1 TTAAATTTAAA
*
2848084 TTAAATCTAAA
1 TTAAATTTAAA
*
2848095 TTTAATTTAAA
1 TTAAATTTAAA
*
2848106 ATAAATTTAAA
1 TTAAATTTAAA
2848117 ATATTTTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:2848104 original size:17 final size:17
Alignment explanation
Indices: 2848074--2848115 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2848064 ATAATAATTT
*
2848074 TAAATTT-ATATTAAATC
1 TAAATTTAATATTAAA-A
2848091 TAAATTTAAT-TTAAAA
1 TAAATTTAATATTAAAA
2848107 TAAATTTAA
1 TAAATTTAA
2848116 AATATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 9 0.39
17 12 0.52
18 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTTAATATTAAAA
Found at i:2852832 original size:144 final size:144
Alignment explanation
Indices: 2852094--2852818 Score: 1180
Period size: 144 Copynumber: 5.0 Consensus size: 144
2852084 TCAAATAACG
* * *
2852094 GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTATCCAATCTTGCCTCCTTGTGCCTTCAA
1 GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
* * * * *
2852159 AGCAACAAACTTGATGGTTCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAATTGGA
66 AGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGGA
*
2852224 TCTGTCCTCCAATA
131 TCTATCCTCCAATA
* * *
2852238 GGCTTGTTGGTTCGATCCCATCTTCTGTCAGCAACTTAACCGATCTTGCCTCGTTGTTCCTTCAA
1 GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
* * * * * *
2852303 AGCAACAAACTTAATGGATCCATTCCACAAGAAATTGAGAGACTAAGGAATTTGGTTGCGTTGGA
66 AGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGGA
2852368 TCTATCCTCCAATA
131 TCTATCCTCCAATA
*
2852382 GACTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
1 GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
* * *
2852447 AGCAACCAACTTGATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCTTTGAA
66 AGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGGA
2852512 TCTATCCTCCAATA
131 TCTATCCTCCAATA
*
2852526 GGCTTGTTGGTCCAATCCCATCTTCTGTCTGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
1 GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
* *
2852591 AGCAACCAACTTAATGGCTCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGAA
66 AGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGGA
2852656 TCTATCCTCCAATA
131 TCTATCCTCCAATA
* *
2852670 GTCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGCTCCTTCAA
1 GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
* *
2852735 AGCAACCAACTTAATGGCTCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGA
66 AGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGGA
*
2852800 TCTATCCTCCAACA
131 TCTATCCTCCAATA
2852814 GGCTT
1 GGCTT
2852819 TCAGGTCACA
Statistics
Matches: 543, Mismatches: 38, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
144 543 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (144 bp):
GGCTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTTCCTTCAA
AGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGCATTGGA
TCTATCCTCCAATA
Found at i:2859056 original size:11 final size:11
Alignment explanation
Indices: 2859030--2859070 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2859020 AGCAACCATG
2859030 TTTTTTT-T-C
1 TTTTTTTCTCC
2859039 TTCTTTTTCTCC
1 TT-TTTTTCTCC
*
2859051 TTTTTTTCTCT
1 TTTTTTTCTCC
2859062 TTTTTTTCT
1 TTTTTTTCT
2859071 TTTCGAACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 5 0.18
11 18 0.64
12 3 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTCTCC
Found at i:2859062 original size:22 final size:21
Alignment explanation
Indices: 2859030--2859070 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2859020 AGCAACCATG
2859030 TTTTTTTTCTTCTTTTTCTCC
1 TTTTTTTTCTTCTTTTTCTCC
*
2859051 TTTTTTTCTCTTTTTTTTCT
1 TTTTTTT-TCTTCTTTTTCT
2859071 TTTCGAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCTTCTTTTTCTCC
Found at i:2859090 original size:34 final size:34
Alignment explanation
Indices: 2859050--2859137 Score: 131
Period size: 35 Copynumber: 2.5 Consensus size: 34
2859040 TCTTTTTCTC
* *
2859050 CTTTTTTTCTCTTTTTTTTCTTTTCGAACCTTTTG
1 CTTTTTTTCT-ATTTTTTTCTTTTCAAACCTTTTG
*
2859085 CTTTTTTTCTCTTTTTTTCTTTTCAAACCTTTTG
1 CTTTTTTTCTATTTTTTTCTTTTCAAACCTTTTG
2859119 CTTTTTTTTCTATTTTTTT
1 C-TTTTTTTCTATTTTTTT
2859138 TACTGTTCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 23 0.47
35 26 0.53
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (34 bp):
CTTTTTTTCTATTTTTTTCTTTTCAAACCTTTTG
Found at i:2859095 original size:35 final size:35
Alignment explanation
Indices: 2859050--2859149 Score: 148
Period size: 34 Copynumber: 2.8 Consensus size: 35
2859040 TCTTTTTCTC
2859050 CTTTTTTTCTCTTTTTTTTCTTTTCGAACCTTTTG
1 CTTTTTTTCTCTTTTTTTTCTTTTCGAACCTTTTG
*
2859085 CTTTTTTTCTC-TTTTTTTCTTTTCAAACCTTTTG
1 CTTTTTTTCTCTTTTTTTTCTTTTCGAACCTTTTG
* *
2859119 CTTTTTTTTCTATTTTTTTTACTGTTCGAAC
1 C-TTTTTTTCTCTTTTTTTT-CTTTTCGAAC
2859150 AACATACGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 23 0.40
35 20 0.34
36 7 0.12
37 8 0.14
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (35 bp):
CTTTTTTTCTCTTTTTTTTCTTTTCGAACCTTTTG
Found at i:2870634 original size:59 final size:59
Alignment explanation
Indices: 2870443--2870902 Score: 549
Period size: 59 Copynumber: 7.8 Consensus size: 59
2870433 AAAATTCCAT
* * * *
2870443 GTTAAAATTGG-ATTTTGGAAGGTTTAGGGGTAAAATGGTAATTTTTGGGTGAAATCGGG
1 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT-GATGAAATCAGG
* * *
2870502 GCTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGGTAA-TTTT-ATTGAAATC-GG
1 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGA-TGAAATCAGG
* * * *
2870559 GATCAAAAATGGAATTTTTGAAGGTTTGGGGGTAAAATGGTAATTTTTGATGAAATCAGG
1 G-TTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAATCAGG
* *
2870619 GTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGATAA-TTTTGAGTGAAATC-GAG
1 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGA-TGAAATCAG-G
* * * *
2870678 GTCAGAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGCAATTTTTGAGTGAAATCAAG
1 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGA-TGAAATCAGG
* * * * *
2870738 GTTAAAAATGGAATTTTGGGAAGTTTAGGGGGTAAAATGGTAATTTTGGGTAAAATTAGG
1 GTTAAAAATGGAATTTTGGAAAGTTTA-GGGGTAAAATGGTAATTTTTGATGAAATCAGG
* * * * *
2870798 GTT-AAAATGGAATCTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGG
1 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAATCAGG
*
2870856 GTT-AAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTTG
1 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTG
2870903 GAAGTTTCGG
Statistics
Matches: 348, Mismatches: 42, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
57 3 0.01
58 121 0.35
59 124 0.36
60 81 0.23
61 19 0.05
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.33
Consensus pattern (59 bp):
GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAATCAGG
Found at i:2870913 original size:58 final size:56
Alignment explanation
Indices: 2870443--2870929 Score: 481
Period size: 58 Copynumber: 8.3 Consensus size: 56
2870433 AAAATTCCAT
*
2870443 GTTAAAATTGG-ATTTTGGAAGGTTTAGGGGTAAAATGGTAATTTTTGGGTGAAATCGGG
1 GTTAAAA-TGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT--G-GAAATCGGG
* * * *
2870502 GCTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTATTGAAATCGGG
1 G-TTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT-TGGAAATCGGG
* * * * * *
2870560 ATCAAAAATGGAATTTTTGAAGGTTTGGGGGTAAAATGGTAATTTTTGATGAAATCAGG
1 GT-TAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTG--GAAATCGGG
* * * *
2870619 GTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGATAATTTTGAGTGAAATCGAG
1 GTT-AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT-TG-GAAATCGGG
* * **
2870678 GTCAGAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGCAATTTTTGAGTGAAATCAAG
1 GTTA-AAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT--G-GAAATCGGG
* * **
2870738 GTTAAAAATGGAATTTTGGGAAGTTTAGGGGGTAAAATGGTAATTTTGGGTAAAATTAGG
1 GTT-AAAATGGAATTTTGGAAAGTTTA-GGGGTAAAATGGTAATTTTTGG--AAATCGGG
* * *
2870798 GTTAAAATGGAATCTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGG
1 GTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT-TG-GAAATCGGG
* *
2870856 GTTAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGTTTCGGG
1 GTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGAA--ATCGGG
* *
2870914 GTCAAAATGTAATTTT
1 GTTAAAATGGAATTTT
2870930 CCAAAATTTT
Statistics
Matches: 364, Mismatches: 45, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
56 3 0.01
57 3 0.01
58 136 0.37
59 121 0.33
60 81 0.22
61 20 0.05
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (56 bp):
GTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGAAATCGGG
Found at i:2870962 original size:236 final size:236
Alignment explanation
Indices: 2870464--2870900 Score: 612
Period size: 236 Copynumber: 1.9 Consensus size: 236
2870454 ATTTTGGAAG
* ** *
2870464 GTTTAGGGGTAAAATGGTAATTTTTGGGTGAAATCGGGGCTAAAAATGGGATTTTAGAAAGTTTA
1 GTTTAGGGGTAAAATGGTAATTTTTGAGTGAAATCAAGGCTAAAAATGGAATTTTAGAAAGTTTA
* * * * * *
2870529 GGGGTAAAATGGTAATTTTATTGAAATCGGGATCAAAAATGGAATTTTTGAAGGTTTGGGGGTAA
66 GGGGTAAAATGGTAATTTTAGTAAAATAGGGATCAAAAATGGAATCTTGGAAAGTTTGGGGGTAA
*
2870594 AATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGAT
131 AATGGTAATTTTGGATGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGAT
**
2870659 AATTTTGAGTGAAATCGAGGTCAGAAATGGAATTTTGGAAA
196 AATTTTGAGTGAAATCGAGGTCAGAAATGGAATTTTCAAAA
* * * *
2870700 GTTTAGGGGTAAAATGGCAATTTTTGAGTGAAATCAAGGTTAAAAATGGAATTTTGGGAAGTTTA
1 GTTTAGGGGTAAAATGGTAATTTTTGAGTGAAATCAAGGCTAAAAATGGAATTTTAGAAAGTTTA
* *
2870765 GGGGGTAAAATGGTAATTTTGGGTAAAATTAGGG-T-TAAAATGGAATCTTGGAAAGTTTGGGGG
66 -GGGGTAAAATGGTAATTTT-AGTAAAA-TAGGGATCAAAAATGGAATCTTGGAAAGTTTGGGGG
* *
2870828 TAAAATGGTAATTTTGGGTGAAATCGGGGTT-AAAATGGAATTTT-AGAAAGTTTAGGGGTAAAA
128 TAAAATGGTAATTTTGGATGAAATCAGGGTTAAAAATGGAATTTTGA-AAAGTTTAGGGGTAAAA
*
2870891 TGGTAATTTT
192 TGATAATTTT
2870901 TGGAAGTTTC
Statistics
Matches: 177, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
235 1 0.01
236 96 0.54
237 71 0.40
238 5 0.03
239 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (236 bp):
GTTTAGGGGTAAAATGGTAATTTTTGAGTGAAATCAAGGCTAAAAATGGAATTTTAGAAAGTTTA
GGGGTAAAATGGTAATTTTAGTAAAATAGGGATCAAAAATGGAATCTTGGAAAGTTTGGGGGTAA
AATGGTAATTTTGGATGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGAT
AATTTTGAGTGAAATCGAGGTCAGAAATGGAATTTTCAAAA
Found at i:2872779 original size:6 final size:6
Alignment explanation
Indices: 2872764--2872822 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
2872754 TTAAATTTGA
* * *
2872764 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
2872812 ATAAAT TTAAA
1 TTAAAT TTAAA
2872823 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:2872798 original size:14 final size:14
Alignment explanation
Indices: 2872779--2872806 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2872769 CTTAAATTTA
2872779 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
2872793 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
2872807 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:2873067 original size:17 final size:17
Alignment explanation
Indices: 2873045--2873078 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2873035 TTAAGAATTT
2873045 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
2873062 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
2873079 GTATTAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:2873914 original size:32 final size:32
Alignment explanation
Indices: 2873834--2873896 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2873824 TGAAAATATT
2873834 TAAATTAAATCCTAAAAACAAAAGATAATTTC
1 TAAATTAAATCCTAAAAACAAAAGATAATTTC
2873866 TAAATTAAATCCTAAAAACAAAAGATAATTT
1 TAAATTAAATCCTAAAAACAAAAGATAATTT
2873897 TTAATTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (32 bp):
TAAATTAAATCCTAAAAACAAAAGATAATTTC
Found at i:2873968 original size:23 final size:23
Alignment explanation
Indices: 2873940--2873986 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
2873930 CATCCATCCT
2873940 TGCTGACT-AGACCTTCTAGAAGC
1 TGCTGACTGA-ACCTTCTAGAAGC
2873963 TGCTGACTGAACCTTCTAGAAGC
1 TGCTGACTGAACCTTCTAGAAGC
2873986 T
1 T
2873987 ATTGACTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (23 bp):
TGCTGACTGAACCTTCTAGAAGC
Found at i:2873992 original size:23 final size:23
Alignment explanation
Indices: 2873942--2873994 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2873932 TCCATCCTTG
*
2873942 CTGACT-AGACCTTCTAGAAGCTG
1 CTGACTGA-ACCTTCTAGAAGCTA
2873965 CTGACTGAACCTTCTAGAAGCTA
1 CTGACTGAACCTTCTAGAAGCTA
*
2873988 TTGACTG
1 CTGACTG
2873995 GACGTCACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (23 bp):
CTGACTGAACCTTCTAGAAGCTA
Found at i:2874322 original size:31 final size:31
Alignment explanation
Indices: 2874247--2874329 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
2874237 CAAGAATCAG
2874247 ATTAAATCAAAATTTCATGTATAAAATTACAC
1 ATTAAATCAAAATTT-ATGTATAAAATTACAC
* *
2874279 A--AAATCAAAATTTATGTGTACAATTACAC
1 ATTAAATCAAAATTTATGTATAAAATTACAC
*
2874308 ATTAAATCATAATTTATGTATA
1 ATTAAATCAAAATTTATGTATA
2874330 GTTTTAAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 15 0.33
30 12 0.27
31 17 0.38
32 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (31 bp):
ATTAAATCAAAATTTATGTATAAAATTACAC
Found at i:2874507 original size:34 final size:35
Alignment explanation
Indices: 2874434--2874507 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 35
2874424 TGTAATTTAA
*
2874434 ATTTTATTCCAAACAAAATCCAATCTAATTAGGAAATTT
1 ATTTTATTCCAAAAAAAATCCAATCTAATT----AATTT
2874473 ATTTTATTCCAAAAAAAATCCAATCTAATT-ATTT
1 ATTTTATTCCAAAAAAAATCCAATCTAATTAATTT
2874507 A
1 A
2874508 ATAAATAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.15
39 29 0.85
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (35 bp):
ATTTTATTCCAAAAAAAATCCAATCTAATTAATTT
Found at i:2875139 original size:28 final size:28
Alignment explanation
Indices: 2875095--2875199 Score: 97
Period size: 28 Copynumber: 3.6 Consensus size: 28
2875085 ACTTTTTTCT
*
2875095 AATTTGGTACCTAAACTTTTTTTGACCC
1 AATTTGGTACCTGAACTTTTTTTGACCC
* * *
2875123 AATTTGATACCTGAACTTGACATTTTT-TCCT
1 AATTTGGTACCTGAACTT----TTTTTGACCC
* *
2875154 AATTTGGTA-CTTAATTTTTTTTGGACCC
1 AATTTGGTACCTGAACTTTTTTT-GACCC
2875182 AATTTGGTACCTGAACTT
1 AATTTGGTACCTGAACTT
2875200 GGCATTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
26 5 0.08
28 27 0.46
29 6 0.10
30 6 0.10
31 10 0.17
32 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (28 bp):
AATTTGGTACCTGAACTTTTTTTGACCC
Found at i:2875157 original size:59 final size:61
Alignment explanation
Indices: 2875065--2875256 Score: 230
Period size: 59 Copynumber: 3.2 Consensus size: 61
2875055 TTAATATAAT
* *
2875065 ATTTGGTACCTAAACTTGGCACTTTTTT-CTAATTTGGTACCTAAACTTTTTTT-GACCCA
1 ATTTGGTACCTGAACTTGGCATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGACCCA
* * * * *
2875124 ATTTGATACCTGAACTTGACA-TTTTTTCCTAATTTGGTA-CTTAATTTTTTTTGGACCCA
1 ATTTGGTACCTGAACTTGGCATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGACCCA
* * **
2875183 ATTTGGTACCTGAACTTGGCATTTTTTTTCCTAATTTGGCACCTAAGCTTTATTTTAGATTCA
1 ATTTGGTACCTGAACTTGGCA-TTTTTTTCCTAATTTGGTACCTAAACTTT-TTTTAGACCCA
*
2875246 ATTTGCTACCT
1 ATTTGGTACCT
2875257 AAATGTATTA
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
58 17 0.15
59 54 0.48
61 17 0.15
62 6 0.05
63 18 0.16
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (61 bp):
ATTTGGTACCTGAACTTGGCATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGACCCA
Found at i:2875583 original size:92 final size:90
Alignment explanation
Indices: 2875411--2875606 Score: 209
Period size: 92 Copynumber: 2.1 Consensus size: 90
2875401 AAAAAAAGAC
* **
2875411 TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTATCAAATTGGACCCCAAAAAGTTTAAGTA
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCAAAAAAAGTTTAAGTA
*
2875476 CCAACTTTAAAAAAAAAGTGTCAAGGT
66 CCAACATT-AAAAAAAAGTGTCAA-GT
* * * *
2875503 TAGGTACCAAATTAGGAAAACGTGTCAAATT-TGAGTACCAAATTGGACCAAAAAAAAGTTT-AG
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAG-GTACCAAATTGGACC-AAAAAAAGTTTAAG
** *
2875566 ATACCAA-ATTAGGAAAAAGTGTTAAGT
64 -TACCAACATTAAAAAAAAGTGTCAAGT
*
2875593 TCAAGTACCAAATT
1 T-AGGTACCAAATT
2875607 TTATATCAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
90 3 0.03
91 24 0.27
92 46 0.52
93 15 0.17
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (90 bp):
TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCAAAAAAAGTTTAAGTA
CCAACATTAAAAAAAAGTGTCAAGT
Found at i:2878923 original size:6 final size:6
Alignment explanation
Indices: 2878915--2878977 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
2878905 AAACACAAAT
* * * *
2878915 TTTAAT TTTAAA TTT-AT TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
2878961 TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
2878978 ATTTGAAAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 12 0.26
6 34 0.74
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (6 bp):
TTTAAA
Found at i:2878933 original size:11 final size:11
Alignment explanation
Indices: 2878919--2878975 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
2878909 ACAAATTTTA
2878919 ATTTTAAATTT
1 ATTTTAAATTT
*
2878930 ATTTTAAGTTT
1 ATTTTAAATTT
* *
2878941 AAATTT-ATTTT
1 -ATTTTAAATTT
*
2878952 AAATTTAAATTT
1 -ATTTTAAATTT
2878964 ATTTTAAATTT
1 ATTTTAAATTT
2878975 A
1 A
2878976 AAATTTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
11 31 0.79
12 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:2878933 original size:17 final size:17
Alignment explanation
Indices: 2878913--2878977 Score: 112
Period size: 17 Copynumber: 3.8 Consensus size: 17
2878903 TTAAACACAA
*
2878913 ATTTTAATTTTAAATTT
1 ATTTTAAATTTAAATTT
*
2878930 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
2878947 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
2878964 ATTTTAAATTTAAA
1 ATTTTAAATTTAAA
2878978 ATTTGAAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:2878953 original size:28 final size:28
Alignment explanation
Indices: 2878919--2878975 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2878909 ACAAATTTTA
*
2878919 ATTTTAAATTT-ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT-AGTTTAAATTT
*
2878947 ATTTTAAATTTAAATTTATTTTAAATTT
1 ATTTTAAATTTAAATTTAGTTTAAATTT
2878975 A
1 A
2878976 AAATTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTTAAATTTAAATTTAGTTTAAATTT
Found at i:2880012 original size:13 final size:13
Alignment explanation
Indices: 2879975--2880012 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2879965 TTTTGTTTAT
* *
2879975 AAATAATAAAGAG
1 AAATAAGAAAGGG
2879988 AAATAAGAAAGGG
1 AAATAAGAAAGGG
2880001 AAATAAGAAAGG
1 AAATAAGAAAGG
2880013 TAAAAAGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.11
Consensus pattern (13 bp):
AAATAAGAAAGGG
Found at i:2880760 original size:30 final size:30
Alignment explanation
Indices: 2880719--2880959 Score: 151
Period size: 30 Copynumber: 8.1 Consensus size: 30
2880709 AAGCTTTGTA
*
2880719 AAAAATTACATTTTTACCCTCAAACTTTGC
1 AAAAATTACATTTTTACCCTCAAACTTTCC
* * * *
2880749 AAAAATCACA-TTTAACCCTTAGACTTTTCC
1 AAAAATTACATTTTTACCCTCAAAC-TTTCC
* * ** *
2880779 -AAAATTACATTTTGACCTTTGAACTTCCC
1 AAAAATTACATTTTTACCCTCAAACTTTCC
* *
2880808 AAAAA-T-CATGTTTTGACCC-CTGAACTTTCT
1 AAAAATTACAT-TTTT-ACCCTC-AAACTTTCC
*
2880838 AAAAATTATCATTTTAACCCT-AAACTTTTCC
1 AAAAATTA-CATTTTTACCCTCAAAC-TTTCC
** * * *
2880869 -AAAATTGTATTTTTACCCCCGAAC-ATCC
1 AAAAATTACATTTTTACCCTCAAACTTTCC
2880897 AAAAATTACCATTTTT-CCCTCAAA-TTTCC
1 AAAAATTA-CATTTTTACCCTCAAACTTTCC
* * * *
2880926 AAAAATCACATTTTTAACCTTAAATTTTCC
1 AAAAATTACATTTTTACCCTCAAACTTTCC
2880956 AAAA
1 AAAA
2880960 GTTTTATTTT
Statistics
Matches: 161, Mismatches: 33, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
28 13 0.08
29 64 0.40
30 69 0.43
31 9 0.06
32 3 0.02
33 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAAATTACATTTTTACCCTCAAACTTTCC
Found at i:2880767 original size:29 final size:29
Alignment explanation
Indices: 2880688--2880790 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 29
2880678 TGATTTGTTT
* * *
2880688 AAAAATTACATTGTGATCCCT-AAGCTTTGTA
1 AAAAATTACATT-T-AACCCTCAAACTTTG-C
*
2880719 AAAAATTACATTTTTACCCTCAAACTTTGC
1 AAAAATTACA-TTTAACCCTCAAACTTTGC
* * * *
2880749 AAAAATCACATTTAACCCTTAGACTTTTC
1 AAAAATTACATTTAACCCTCAAACTTTGC
*
2880778 CAAAATTACATTT
1 AAAAATTACATTT
2880791 TGACCTTTGA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 26 0.44
30 13 0.22
31 18 0.31
32 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTAACCCTCAAACTTTGC
Found at i:2880797 original size:29 final size:30
Alignment explanation
Indices: 2880688--2880874 Score: 103
Period size: 30 Copynumber: 6.2 Consensus size: 30
2880678 TGATTTGTTT
* * * *
2880688 AAAAATTACATTGTGATCCC-TAAGCTTTGTA
1 AAAAATTACATT-TTAACCCTTAAACTTTG-C
* *
2880719 AAAAATTACATTTTTACCCTCAAACTTTGC
1 AAAAATTACATTTTAACCCTTAAACTTTGC
* * *
2880749 AAAAATCACA-TTTAACCCTTAGACTTTTC
1 AAAAATTACATTTTAACCCTTAAACTTTGC
* * * * **
2880778 CAAAATTACATTTTGACCTTTGAACTTCCC
1 AAAAATTACATTTTAACCCTTAAACTTTGC
* ** * * *
2880808 AAAAATCATGTTTTGACCCCTGAACTTT-C
1 AAAAATTACATTTTAACCCTTAAACTTTGC
*
2880837 TAAAAATTATCATTTTAACCC-TAAACTTTTC
1 -AAAAATTA-CATTTTAACCCTTAAACTTTGC
*
2880868 CAAAATT
1 AAAAATT
2880875 GTATTTTTAC
Statistics
Matches: 119, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
29 24 0.20
30 67 0.56
31 28 0.24
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCTTAAACTTTGC
Found at i:2880926 original size:29 final size:30
Alignment explanation
Indices: 2880894--2880959 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
2880884 CCCCCGAACA
* *
2880894 TCCAAAAATTACCATTTTT-CCCTCAAA-TT
1 TCCAAAAATCA-CATTTTTAACCTCAAATTT
*
2880923 TCCAAAAATCACATTTTTAACCTTAAATTT
1 TCCAAAAATCACATTTTTAACCTCAAATTT
2880953 TCCAAAA
1 TCCAAAA
2880960 GTTTTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.22
29 16 0.50
30 9 0.28
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.36
Consensus pattern (30 bp):
TCCAAAAATCACATTTTTAACCTCAAATTT
Found at i:2882478 original size:20 final size:21
Alignment explanation
Indices: 2882452--2882512 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
2882442 CTTGTATGAG
*
2882452 ATTGCACTTTGGTGCCTCTAT
1 ATTGCACTATGGTGCCTCTAT
* *
2882473 -TTGCACTACGATGCCTCTAT
1 ATTGCACTATGGTGCCTCTAT
*
2882493 ATAGCACTATGGTGCTCTCT
1 ATTGCACTATGGTGC-CTCT
2882513 GGTGGTGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 17 0.53
21 11 0.34
22 4 0.12
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (21 bp):
ATTGCACTATGGTGCCTCTAT
Found at i:2883988 original size:22 final size:22
Alignment explanation
Indices: 2883937--2883979 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2883927 ACTAATAGAA
*
2883937 CACTAGGCACCGAAATGCAAAT
1 CACTAAGCACCGAAATGCAAAT
*
2883959 CACTAAGCACCGAAGTGCAAA
1 CACTAAGCACCGAAATGCAAA
2883980 ATAGTAAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.28, G:0.19, T:0.12
Consensus pattern (22 bp):
CACTAAGCACCGAAATGCAAAT
Found at i:2886241 original size:17 final size:18
Alignment explanation
Indices: 2886210--2886244 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2886200 TAAAAATAAC
*
2886210 CAAAAATCAACAAACAAA
1 CAAAAACCAACAAACAAA
2886228 CAAAAACCAA-AAACAAA
1 CAAAAACCAACAAACAAA
2886245 GTCTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.23, G:0.00, T:0.03
Consensus pattern (18 bp):
CAAAAACCAACAAACAAA
Found at i:2889379 original size:27 final size:24
Alignment explanation
Indices: 2889341--2889394 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 24
2889331 AAGTCTTCGT
2889341 TTTCATTGCTTCTGCTGCCACTTGATC
1 TTTCATTGCTTCT--T-CCACTTGATC
*
2889368 TTTCGTTGCTTCTTCCACTTGATC
1 TTTCATTGCTTCTTCCACTTGATC
2889392 TTT
1 TTT
2889395 TGCTAGACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 13 0.50
25 1 0.04
27 12 0.46
ACGTcount: A:0.09, C:0.28, G:0.13, T:0.50
Consensus pattern (24 bp):
TTTCATTGCTTCTTCCACTTGATC
Found at i:2892765 original size:59 final size:59
Alignment explanation
Indices: 2892701--2893017 Score: 464
Period size: 59 Copynumber: 5.4 Consensus size: 59
2892691 TTTTAACTTC
* * ** *
2892701 CGGGGGTAAAAAT-GTATTTTTTGGTGAAATCGAAGTCGAAAATGGGATTTTAGAAAGTT
1 CGGGGGT-AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTT
*
2892760 TGGGGGTAAAATGGTAA-TTTTGGTGAAATC-AGGGTTAAAAAAT-GGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTT-AAAAATGGGATTTTGGAAAGTT
*
2892818 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTT-AAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTT
*
2892876 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTT
** * *
2892935 TAGGGGTAAAATGGTAGTTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTT
2892994 CGGGGGTAAAATGGTAATTTTTGG
1 CGGGGGTAAAATGGTAATTTTTGG
2893018 ACAGTCAAGG
Statistics
Matches: 236, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
57 6 0.03
58 100 0.42
59 129 0.55
60 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTT
Found at i:2892916 original size:117 final size:117
Alignment explanation
Indices: 2892701--2893017 Score: 471
Period size: 117 Copynumber: 2.7 Consensus size: 117
2892691 TTTTAACTTC
* * * *
2892701 CGGGGGTAAAAAT-GTATTTTTTGGTGAAATCGAA-GTCGAAAATGGGATTTTAGAAAGTTTGGG
1 CGGGGGT-AAAATGGTAATTTTTGGTGAAATC-AAGGT-TAAAATGGGATTTTGGAAAGTTCGGG
2892764 GGTAAAATGGTAA-TTTTGGTGAAATCAGGGTTAAAAAAT-GGATTTTGGAAAGTT
63 GGTAAAATGGTAATTTTTGGTGAAATCAGGGTT-AAAAATGGGATTTTGGAAAGTT
2892818 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAATGGGATTTTGGAAAGTTCGGGGGT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAATGGGATTTTGGAAAGTTCGGGGGT
*
2892883 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
66 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGGATTTTGGAAAGTT
** * **
2892935 TAGGGGTAAAATGGTAGTTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTT-AAAATGGGATTTTGGAAAGTTCGGGGG
2893000 TAAAATGGTAATTTTTGG
65 TAAAATGGTAATTTTTGG
2893018 ACAGTCAAGG
Statistics
Matches: 185, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
116 49 0.26
117 91 0.49
118 45 0.24
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (117 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAATGGGATTTTGGAAAGTTCGGGGGT
AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGGATTTTGGAAAGTT
Found at i:2893986 original size:3 final size:3
Alignment explanation
Indices: 2893978--2894023 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
2893968 TTATAAATAT
* * *
2893978 TTA TTA TTA TTA TTA TTTA TTA TTA TAA TTA TTA CTA ATA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2894024 ATAATATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2893986 original size:16 final size:16
Alignment explanation
Indices: 2893962--2894010 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
2893952 TTAATATTGA
*
2893962 TATTAATTATAAATATT
1 TATT-ATTATAATTATT
*
2893979 TATTATTATTATTATT
1 TATTATTATAATTATT
2893995 TATTATTATAATTATT
1 TATTATTATAATTATT
2894011 ACTAATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATTATAATTATT
Found at i:2894806 original size:6 final size:6
Alignment explanation
Indices: 2894797--2894879 Score: 59
Period size: 6 Copynumber: 14.0 Consensus size: 6
2894787 TTAATATTAT
*
2894797 TTTAAA TTT-AA -TTAAA TTTAAA TAAGTAAA TTTAAA TTTAAGA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA
** *
2894844 TTTAAA AATAAA TTTAAA ATT-AA TTTAAA CTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
2894880 AAATCAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
4 3 0.05
5 11 0.18
6 34 0.57
7 7 0.12
8 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Done.